From 384b303686d9e83c2b33603b085b40ef464e2f12 Mon Sep 17 00:00:00 2001 From: Daniel Blankenberg Date: Wed, 16 Nov 2011 09:50:34 -0500 Subject: [PATCH] Add EMBOSS citation to EMBOSS tools. --- tools/emboss_5/emboss_antigenic.xml | 6 ++++-- tools/emboss_5/emboss_backtranseq.xml | 6 ++++-- tools/emboss_5/emboss_banana.xml | 6 ++++-- tools/emboss_5/emboss_biosed.xml | 6 ++++-- tools/emboss_5/emboss_btwisted.xml | 6 ++++-- tools/emboss_5/emboss_cai.xml | 6 ++++-- tools/emboss_5/emboss_cai_custom.xml | 6 ++++-- tools/emboss_5/emboss_chaos.xml | 6 ++++-- tools/emboss_5/emboss_charge.xml | 6 ++++-- tools/emboss_5/emboss_checktrans.xml | 6 ++++-- tools/emboss_5/emboss_chips.xml | 6 ++++-- tools/emboss_5/emboss_cirdna.xml | 6 ++++-- tools/emboss_5/emboss_codcmp.xml | 6 ++++-- tools/emboss_5/emboss_coderet.xml | 6 ++++-- tools/emboss_5/emboss_compseq.xml | 6 ++++-- tools/emboss_5/emboss_cpgplot.xml | 6 ++++-- tools/emboss_5/emboss_cpgreport.xml | 6 ++++-- tools/emboss_5/emboss_cusp.xml | 6 ++++-- tools/emboss_5/emboss_cutseq.xml | 6 ++++-- tools/emboss_5/emboss_dan.xml | 6 ++++-- tools/emboss_5/emboss_degapseq.xml | 6 ++++-- tools/emboss_5/emboss_descseq.xml | 6 ++++-- tools/emboss_5/emboss_diffseq.xml | 6 ++++-- tools/emboss_5/emboss_digest.xml | 6 ++++-- tools/emboss_5/emboss_dotmatcher.xml | 6 ++++-- tools/emboss_5/emboss_dotpath.xml | 6 ++++-- tools/emboss_5/emboss_dottup.xml | 6 ++++-- tools/emboss_5/emboss_dreg.xml | 6 ++++-- tools/emboss_5/emboss_einverted.xml | 6 ++++-- tools/emboss_5/emboss_epestfind.xml | 6 ++++-- tools/emboss_5/emboss_equicktandem.xml | 6 ++++-- tools/emboss_5/emboss_est2genome.xml | 6 ++++-- tools/emboss_5/emboss_etandem.xml | 6 ++++-- tools/emboss_5/emboss_extractfeat.xml | 2 ++ tools/emboss_5/emboss_extractseq.xml | 6 ++++-- tools/emboss_5/emboss_freak.xml | 6 ++++-- tools/emboss_5/emboss_fuzznuc.xml | 6 ++++-- tools/emboss_5/emboss_fuzzpro.xml | 6 ++++-- tools/emboss_5/emboss_fuzztran.xml | 6 ++++-- tools/emboss_5/emboss_garnier.xml | 6 ++++-- tools/emboss_5/emboss_geecee.xml | 6 ++++-- tools/emboss_5/emboss_getorf.xml | 6 ++++-- tools/emboss_5/emboss_helixturnhelix.xml | 6 ++++-- tools/emboss_5/emboss_hmoment.xml | 6 ++++-- tools/emboss_5/emboss_iep.xml | 6 ++++-- tools/emboss_5/emboss_infoseq.xml | 6 ++++-- tools/emboss_5/emboss_isochore.xml | 2 ++ tools/emboss_5/emboss_lindna.xml | 6 ++++-- tools/emboss_5/emboss_marscan.xml | 6 ++++-- tools/emboss_5/emboss_maskfeat.xml | 6 ++++-- tools/emboss_5/emboss_maskseq.xml | 6 ++++-- tools/emboss_5/emboss_matcher.xml | 6 ++++-- tools/emboss_5/emboss_megamerger.xml | 6 ++++-- tools/emboss_5/emboss_merger.xml | 6 ++++-- tools/emboss_5/emboss_msbar.xml | 6 ++++-- tools/emboss_5/emboss_needle.xml | 6 ++++-- tools/emboss_5/emboss_newcpgreport.xml | 6 ++++-- tools/emboss_5/emboss_newcpgseek.xml | 6 ++++-- tools/emboss_5/emboss_newseq.xml | 6 ++++-- tools/emboss_5/emboss_noreturn.xml | 6 ++++-- tools/emboss_5/emboss_notseq.xml | 6 ++++-- tools/emboss_5/emboss_nthseq.xml | 6 ++++-- tools/emboss_5/emboss_octanol.xml | 2 ++ tools/emboss_5/emboss_oddcomp.xml | 6 ++++-- tools/emboss_5/emboss_palindrome.xml | 6 ++++-- tools/emboss_5/emboss_pasteseq.xml | 6 ++++-- tools/emboss_5/emboss_patmatdb.xml | 6 ++++-- tools/emboss_5/emboss_pepcoil.xml | 6 ++++-- tools/emboss_5/emboss_pepinfo.xml | 6 ++++-- tools/emboss_5/emboss_pepnet.xml | 6 ++++-- tools/emboss_5/emboss_pepstats.xml | 6 ++++-- tools/emboss_5/emboss_pepwheel.xml | 6 ++++-- tools/emboss_5/emboss_pepwindow.xml | 6 ++++-- tools/emboss_5/emboss_pepwindowall.xml | 6 ++++-- tools/emboss_5/emboss_plotcon.xml | 6 ++++-- tools/emboss_5/emboss_plotorf.xml | 6 ++++-- tools/emboss_5/emboss_polydot.xml | 6 ++++-- tools/emboss_5/emboss_preg.xml | 6 ++++-- tools/emboss_5/emboss_prettyplot.xml | 6 ++++-- tools/emboss_5/emboss_prettyseq.xml | 6 ++++-- tools/emboss_5/emboss_primersearch.xml | 6 ++++-- tools/emboss_5/emboss_revseq.xml | 6 ++++-- tools/emboss_5/emboss_seqmatchall.xml | 6 ++++-- tools/emboss_5/emboss_seqret.xml | 6 ++++-- tools/emboss_5/emboss_showfeat.xml | 6 ++++-- tools/emboss_5/emboss_shuffleseq.xml | 6 ++++-- tools/emboss_5/emboss_sigcleave.xml | 6 ++++-- tools/emboss_5/emboss_sirna.xml | 6 ++++-- tools/emboss_5/emboss_sixpack.xml | 6 ++++-- tools/emboss_5/emboss_skipseq.xml | 6 ++++-- tools/emboss_5/emboss_splitter.xml | 6 ++++-- tools/emboss_5/emboss_supermatcher.xml | 6 ++++-- tools/emboss_5/emboss_syco.xml | 6 ++++-- tools/emboss_5/emboss_tcode.xml | 6 ++++-- tools/emboss_5/emboss_textsearch.xml | 6 ++++-- tools/emboss_5/emboss_tmap.xml | 6 ++++-- tools/emboss_5/emboss_tranalign.xml | 6 ++++-- tools/emboss_5/emboss_transeq.xml | 6 ++++-- tools/emboss_5/emboss_trimest.xml | 6 ++++-- tools/emboss_5/emboss_trimseq.xml | 6 ++++-- tools/emboss_5/emboss_twofeat.xml | 6 ++++-- tools/emboss_5/emboss_union.xml | 6 ++++-- tools/emboss_5/emboss_vectorstrip.xml | 6 ++++-- tools/emboss_5/emboss_water.xml | 6 ++++-- tools/emboss_5/emboss_wobble.xml | 6 ++++-- tools/emboss_5/emboss_wordcount.xml | 6 ++++-- tools/emboss_5/emboss_wordmatch.xml | 6 ++++-- 107 files changed, 422 insertions(+), 208 deletions(-) diff --git a/tools/emboss_5/emboss_antigenic.xml b/tools/emboss_5/emboss_antigenic.xml index 776cd01e128..50dfdb53783 100644 --- a/tools/emboss_5/emboss_antigenic.xml +++ b/tools/emboss_5/emboss_antigenic.xml @@ -48,8 +48,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_backtranseq.xml b/tools/emboss_5/emboss_backtranseq.xml index edca79a3f7e..b2ba60beb62 100644 --- a/tools/emboss_5/emboss_backtranseq.xml +++ b/tools/emboss_5/emboss_backtranseq.xml @@ -219,8 +219,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_banana.xml b/tools/emboss_5/emboss_banana.xml index 5be4616bdff..9948d6f6907 100644 --- a/tools/emboss_5/emboss_banana.xml +++ b/tools/emboss_5/emboss_banana.xml @@ -23,8 +23,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_biosed.xml b/tools/emboss_5/emboss_biosed.xml index 7a41b0cfe28..dd516869ee1 100644 --- a/tools/emboss_5/emboss_biosed.xml +++ b/tools/emboss_5/emboss_biosed.xml @@ -72,8 +72,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_btwisted.xml b/tools/emboss_5/emboss_btwisted.xml index ae1df7a1de5..d363ec80f77 100644 --- a/tools/emboss_5/emboss_btwisted.xml +++ b/tools/emboss_5/emboss_btwisted.xml @@ -23,8 +23,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_cai.xml b/tools/emboss_5/emboss_cai.xml index ca3914d0903..0d9bb463809 100644 --- a/tools/emboss_5/emboss_cai.xml +++ b/tools/emboss_5/emboss_cai.xml @@ -184,8 +184,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_cai_custom.xml b/tools/emboss_5/emboss_cai_custom.xml index f498953bd24..3e6572717f0 100644 --- a/tools/emboss_5/emboss_cai_custom.xml +++ b/tools/emboss_5/emboss_cai_custom.xml @@ -26,8 +26,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_chaos.xml b/tools/emboss_5/emboss_chaos.xml index 45094d3a1d2..2e36f52a10a 100644 --- a/tools/emboss_5/emboss_chaos.xml +++ b/tools/emboss_5/emboss_chaos.xml @@ -22,8 +22,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_charge.xml b/tools/emboss_5/emboss_charge.xml index 7918458d444..158bbb72bb0 100644 --- a/tools/emboss_5/emboss_charge.xml +++ b/tools/emboss_5/emboss_charge.xml @@ -34,8 +34,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_checktrans.xml b/tools/emboss_5/emboss_checktrans.xml index 49282da99be..dfc6e5d74d3 100644 --- a/tools/emboss_5/emboss_checktrans.xml +++ b/tools/emboss_5/emboss_checktrans.xml @@ -86,8 +86,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_chips.xml b/tools/emboss_5/emboss_chips.xml index 5e45c496699..2a280c3361c 100644 --- a/tools/emboss_5/emboss_chips.xml +++ b/tools/emboss_5/emboss_chips.xml @@ -29,8 +29,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_cirdna.xml b/tools/emboss_5/emboss_cirdna.xml index 47d2b9ed465..ce92358d017 100644 --- a/tools/emboss_5/emboss_cirdna.xml +++ b/tools/emboss_5/emboss_cirdna.xml @@ -22,8 +22,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_codcmp.xml b/tools/emboss_5/emboss_codcmp.xml index ea43f755b29..9ef6063a358 100644 --- a/tools/emboss_5/emboss_codcmp.xml +++ b/tools/emboss_5/emboss_codcmp.xml @@ -329,8 +329,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_coderet.xml b/tools/emboss_5/emboss_coderet.xml index 251d37b2980..38f3b4dc656 100644 --- a/tools/emboss_5/emboss_coderet.xml +++ b/tools/emboss_5/emboss_coderet.xml @@ -72,8 +72,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_compseq.xml b/tools/emboss_5/emboss_compseq.xml index cf4b6747a1f..4d8f4323d52 100644 --- a/tools/emboss_5/emboss_compseq.xml +++ b/tools/emboss_5/emboss_compseq.xml @@ -41,8 +41,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_cpgplot.xml b/tools/emboss_5/emboss_cpgplot.xml index d036e9a7774..be4873f5df6 100644 --- a/tools/emboss_5/emboss_cpgplot.xml +++ b/tools/emboss_5/emboss_cpgplot.xml @@ -32,8 +32,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_cpgreport.xml b/tools/emboss_5/emboss_cpgreport.xml index 270858e70ce..148ca65511f 100644 --- a/tools/emboss_5/emboss_cpgreport.xml +++ b/tools/emboss_5/emboss_cpgreport.xml @@ -48,8 +48,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_cusp.xml b/tools/emboss_5/emboss_cusp.xml index acd3ea421c3..d0f88f7c9b1 100644 --- a/tools/emboss_5/emboss_cusp.xml +++ b/tools/emboss_5/emboss_cusp.xml @@ -29,8 +29,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_cutseq.xml b/tools/emboss_5/emboss_cutseq.xml index c2895918a2d..c7f91865a5b 100644 --- a/tools/emboss_5/emboss_cutseq.xml +++ b/tools/emboss_5/emboss_cutseq.xml @@ -71,8 +71,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_dan.xml b/tools/emboss_5/emboss_dan.xml index 4b2f98dfa65..aa968ac0ac0 100644 --- a/tools/emboss_5/emboss_dan.xml +++ b/tools/emboss_5/emboss_dan.xml @@ -83,8 +83,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_degapseq.xml b/tools/emboss_5/emboss_degapseq.xml index be000acbd5b..d2241b7ce54 100644 --- a/tools/emboss_5/emboss_degapseq.xml +++ b/tools/emboss_5/emboss_degapseq.xml @@ -57,8 +57,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_descseq.xml b/tools/emboss_5/emboss_descseq.xml index c87aa049ca7..6b472bf074f 100644 --- a/tools/emboss_5/emboss_descseq.xml +++ b/tools/emboss_5/emboss_descseq.xml @@ -71,8 +71,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_diffseq.xml b/tools/emboss_5/emboss_diffseq.xml index 426653571ee..8b76b5f4bab 100644 --- a/tools/emboss_5/emboss_diffseq.xml +++ b/tools/emboss_5/emboss_diffseq.xml @@ -63,8 +63,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_digest.xml b/tools/emboss_5/emboss_digest.xml index cc2b4ff52a6..bd1b56624a5 100644 --- a/tools/emboss_5/emboss_digest.xml +++ b/tools/emboss_5/emboss_digest.xml @@ -64,8 +64,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_dotmatcher.xml b/tools/emboss_5/emboss_dotmatcher.xml index 144a8420c79..e9233031dce 100644 --- a/tools/emboss_5/emboss_dotmatcher.xml +++ b/tools/emboss_5/emboss_dotmatcher.xml @@ -28,8 +28,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_dotpath.xml b/tools/emboss_5/emboss_dotpath.xml index 9e7fd16f6e5..1baa769c597 100644 --- a/tools/emboss_5/emboss_dotpath.xml +++ b/tools/emboss_5/emboss_dotpath.xml @@ -35,8 +35,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_dottup.xml b/tools/emboss_5/emboss_dottup.xml index ef7ae8f1f4a..4fbe3dd68a1 100644 --- a/tools/emboss_5/emboss_dottup.xml +++ b/tools/emboss_5/emboss_dottup.xml @@ -29,8 +29,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_dreg.xml b/tools/emboss_5/emboss_dreg.xml index f061c5a0a29..b40ca586e9d 100644 --- a/tools/emboss_5/emboss_dreg.xml +++ b/tools/emboss_5/emboss_dreg.xml @@ -21,8 +21,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_einverted.xml b/tools/emboss_5/emboss_einverted.xml index 46ec763baa8..9e74eb570da 100644 --- a/tools/emboss_5/emboss_einverted.xml +++ b/tools/emboss_5/emboss_einverted.xml @@ -49,8 +49,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_epestfind.xml b/tools/emboss_5/emboss_epestfind.xml index 0a2cbb57bad..fd23ebc6a53 100644 --- a/tools/emboss_5/emboss_epestfind.xml +++ b/tools/emboss_5/emboss_epestfind.xml @@ -64,8 +64,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_equicktandem.xml b/tools/emboss_5/emboss_equicktandem.xml index 1f77114fa43..49ffe86d886 100644 --- a/tools/emboss_5/emboss_equicktandem.xml +++ b/tools/emboss_5/emboss_equicktandem.xml @@ -59,8 +59,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_est2genome.xml b/tools/emboss_5/emboss_est2genome.xml index 132800c7caa..a2cff4106b1 100644 --- a/tools/emboss_5/emboss_est2genome.xml +++ b/tools/emboss_5/emboss_est2genome.xml @@ -102,8 +102,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_etandem.xml b/tools/emboss_5/emboss_etandem.xml index bd78594bb84..4b92e125f95 100644 --- a/tools/emboss_5/emboss_etandem.xml +++ b/tools/emboss_5/emboss_etandem.xml @@ -75,8 +75,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_extractfeat.xml b/tools/emboss_5/emboss_extractfeat.xml index 742738daec1..b8d92c325d4 100644 --- a/tools/emboss_5/emboss_extractfeat.xml +++ b/tools/emboss_5/emboss_extractfeat.xml @@ -97,6 +97,8 @@ **Citation** +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_extractseq.xml b/tools/emboss_5/emboss_extractseq.xml index 1f82d662b4d..cd5430c4384 100644 --- a/tools/emboss_5/emboss_extractseq.xml +++ b/tools/emboss_5/emboss_extractseq.xml @@ -67,8 +67,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_freak.xml b/tools/emboss_5/emboss_freak.xml index 098b7ce2196..0c2ba29ee6b 100644 --- a/tools/emboss_5/emboss_freak.xml +++ b/tools/emboss_5/emboss_freak.xml @@ -35,8 +35,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_fuzznuc.xml b/tools/emboss_5/emboss_fuzznuc.xml index b3a784ff49f..d2dbf7f9c29 100644 --- a/tools/emboss_5/emboss_fuzznuc.xml +++ b/tools/emboss_5/emboss_fuzznuc.xml @@ -74,8 +74,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_fuzzpro.xml b/tools/emboss_5/emboss_fuzzpro.xml index a9e5b1eaed1..a4d73112c3c 100644 --- a/tools/emboss_5/emboss_fuzzpro.xml +++ b/tools/emboss_5/emboss_fuzzpro.xml @@ -43,8 +43,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_fuzztran.xml b/tools/emboss_5/emboss_fuzztran.xml index 3c7908146c0..63f4e596df6 100644 --- a/tools/emboss_5/emboss_fuzztran.xml +++ b/tools/emboss_5/emboss_fuzztran.xml @@ -94,8 +94,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_garnier.xml b/tools/emboss_5/emboss_garnier.xml index 18accfee3e1..cfd5ecc0093 100644 --- a/tools/emboss_5/emboss_garnier.xml +++ b/tools/emboss_5/emboss_garnier.xml @@ -57,8 +57,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_geecee.xml b/tools/emboss_5/emboss_geecee.xml index 1645d66f102..570e8fc4a1a 100644 --- a/tools/emboss_5/emboss_geecee.xml +++ b/tools/emboss_5/emboss_geecee.xml @@ -23,8 +23,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_getorf.xml b/tools/emboss_5/emboss_getorf.xml index dc7cf618d59..24ea0d8ebab 100644 --- a/tools/emboss_5/emboss_getorf.xml +++ b/tools/emboss_5/emboss_getorf.xml @@ -128,8 +128,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_helixturnhelix.xml b/tools/emboss_5/emboss_helixturnhelix.xml index 1ce12154d47..519d4ed36e6 100644 --- a/tools/emboss_5/emboss_helixturnhelix.xml +++ b/tools/emboss_5/emboss_helixturnhelix.xml @@ -62,8 +62,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_hmoment.xml b/tools/emboss_5/emboss_hmoment.xml index 3b797d560ae..3d485a7e495 100644 --- a/tools/emboss_5/emboss_hmoment.xml +++ b/tools/emboss_5/emboss_hmoment.xml @@ -31,8 +31,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_iep.xml b/tools/emboss_5/emboss_iep.xml index 38a6872c86d..28e513fce41 100644 --- a/tools/emboss_5/emboss_iep.xml +++ b/tools/emboss_5/emboss_iep.xml @@ -37,8 +37,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_infoseq.xml b/tools/emboss_5/emboss_infoseq.xml index 26780d9418a..14404d24548 100644 --- a/tools/emboss_5/emboss_infoseq.xml +++ b/tools/emboss_5/emboss_infoseq.xml @@ -75,8 +75,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_isochore.xml b/tools/emboss_5/emboss_isochore.xml index f4533c637de..a167740941b 100644 --- a/tools/emboss_5/emboss_isochore.xml +++ b/tools/emboss_5/emboss_isochore.xml @@ -82,6 +82,8 @@ This application plots GC content over a sequence. It is intended for large sequ **Citation** +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_lindna.xml b/tools/emboss_5/emboss_lindna.xml index bc5fd5d821a..7ab378709a9 100644 --- a/tools/emboss_5/emboss_lindna.xml +++ b/tools/emboss_5/emboss_lindna.xml @@ -98,8 +98,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_marscan.xml b/tools/emboss_5/emboss_marscan.xml index 925496d480f..bd19131cc98 100644 --- a/tools/emboss_5/emboss_marscan.xml +++ b/tools/emboss_5/emboss_marscan.xml @@ -44,8 +44,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_maskfeat.xml b/tools/emboss_5/emboss_maskfeat.xml index e2dfd87b887..11ac741c30d 100644 --- a/tools/emboss_5/emboss_maskfeat.xml +++ b/tools/emboss_5/emboss_maskfeat.xml @@ -71,8 +71,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_maskseq.xml b/tools/emboss_5/emboss_maskseq.xml index 86a398bd011..96b4cdd9087 100644 --- a/tools/emboss_5/emboss_maskseq.xml +++ b/tools/emboss_5/emboss_maskseq.xml @@ -71,8 +71,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_matcher.xml b/tools/emboss_5/emboss_matcher.xml index e2dea21f00a..7a55b6c802a 100644 --- a/tools/emboss_5/emboss_matcher.xml +++ b/tools/emboss_5/emboss_matcher.xml @@ -56,8 +56,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_megamerger.xml b/tools/emboss_5/emboss_megamerger.xml index a4cec675d06..fad3be07d68 100644 --- a/tools/emboss_5/emboss_megamerger.xml +++ b/tools/emboss_5/emboss_megamerger.xml @@ -62,8 +62,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_merger.xml b/tools/emboss_5/emboss_merger.xml index 4fa7f29266b..9b10641a75c 100644 --- a/tools/emboss_5/emboss_merger.xml +++ b/tools/emboss_5/emboss_merger.xml @@ -75,8 +75,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_msbar.xml b/tools/emboss_5/emboss_msbar.xml index f922f18775b..1980f0f3a7c 100644 --- a/tools/emboss_5/emboss_msbar.xml +++ b/tools/emboss_5/emboss_msbar.xml @@ -116,8 +116,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_needle.xml b/tools/emboss_5/emboss_needle.xml index 8af3a8095dc..10bfb9461b6 100644 --- a/tools/emboss_5/emboss_needle.xml +++ b/tools/emboss_5/emboss_needle.xml @@ -125,8 +125,10 @@ You can view the original documentation here_. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_newcpgreport.xml b/tools/emboss_5/emboss_newcpgreport.xml index cc29f93b54a..868851b1a1e 100644 --- a/tools/emboss_5/emboss_newcpgreport.xml +++ b/tools/emboss_5/emboss_newcpgreport.xml @@ -43,8 +43,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_newcpgseek.xml b/tools/emboss_5/emboss_newcpgseek.xml index 1b3f72c779e..8bbde6f0b7a 100644 --- a/tools/emboss_5/emboss_newcpgseek.xml +++ b/tools/emboss_5/emboss_newcpgseek.xml @@ -34,8 +34,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_newseq.xml b/tools/emboss_5/emboss_newseq.xml index 61f674cc4a7..99c510ca6f8 100644 --- a/tools/emboss_5/emboss_newseq.xml +++ b/tools/emboss_5/emboss_newseq.xml @@ -71,8 +71,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_noreturn.xml b/tools/emboss_5/emboss_noreturn.xml index 5a37e0639a7..76f9dde8070 100644 --- a/tools/emboss_5/emboss_noreturn.xml +++ b/tools/emboss_5/emboss_noreturn.xml @@ -30,8 +30,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_notseq.xml b/tools/emboss_5/emboss_notseq.xml index 3554d066d54..783141e2272 100644 --- a/tools/emboss_5/emboss_notseq.xml +++ b/tools/emboss_5/emboss_notseq.xml @@ -68,8 +68,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_nthseq.xml b/tools/emboss_5/emboss_nthseq.xml index a629ac14661..ae0d178d13a 100644 --- a/tools/emboss_5/emboss_nthseq.xml +++ b/tools/emboss_5/emboss_nthseq.xml @@ -68,8 +68,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_octanol.xml b/tools/emboss_5/emboss_octanol.xml index 8263c60a091..ad389f77607 100644 --- a/tools/emboss_5/emboss_octanol.xml +++ b/tools/emboss_5/emboss_octanol.xml @@ -39,6 +39,8 @@ **Citation** +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_oddcomp.xml b/tools/emboss_5/emboss_oddcomp.xml index ae98e0fbd12..c482b44850c 100644 --- a/tools/emboss_5/emboss_oddcomp.xml +++ b/tools/emboss_5/emboss_oddcomp.xml @@ -39,8 +39,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_palindrome.xml b/tools/emboss_5/emboss_palindrome.xml index b8a9fbaa89f..957b8be3cd2 100644 --- a/tools/emboss_5/emboss_palindrome.xml +++ b/tools/emboss_5/emboss_palindrome.xml @@ -52,8 +52,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_pasteseq.xml b/tools/emboss_5/emboss_pasteseq.xml index fcc8aa8641a..816c36b420d 100644 --- a/tools/emboss_5/emboss_pasteseq.xml +++ b/tools/emboss_5/emboss_pasteseq.xml @@ -72,8 +72,10 @@ The input datasets need to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_patmatdb.xml b/tools/emboss_5/emboss_patmatdb.xml index c067e22acc9..500e4f0d5ad 100644 --- a/tools/emboss_5/emboss_patmatdb.xml +++ b/tools/emboss_5/emboss_patmatdb.xml @@ -48,8 +48,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_pepcoil.xml b/tools/emboss_5/emboss_pepcoil.xml index 4acaac678a7..a2c43a183ce 100644 --- a/tools/emboss_5/emboss_pepcoil.xml +++ b/tools/emboss_5/emboss_pepcoil.xml @@ -45,8 +45,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_pepinfo.xml b/tools/emboss_5/emboss_pepinfo.xml index 4865f898e03..72555294d36 100644 --- a/tools/emboss_5/emboss_pepinfo.xml +++ b/tools/emboss_5/emboss_pepinfo.xml @@ -27,8 +27,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_pepnet.xml b/tools/emboss_5/emboss_pepnet.xml index 0ff9716d49e..77c4ed171f2 100644 --- a/tools/emboss_5/emboss_pepnet.xml +++ b/tools/emboss_5/emboss_pepnet.xml @@ -32,8 +32,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_pepstats.xml b/tools/emboss_5/emboss_pepstats.xml index 071133ee435..40c32bbe3a9 100644 --- a/tools/emboss_5/emboss_pepstats.xml +++ b/tools/emboss_5/emboss_pepstats.xml @@ -29,8 +29,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_pepwheel.xml b/tools/emboss_5/emboss_pepwheel.xml index 3d4e155bea8..748a761981a 100644 --- a/tools/emboss_5/emboss_pepwheel.xml +++ b/tools/emboss_5/emboss_pepwheel.xml @@ -44,8 +44,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_pepwindow.xml b/tools/emboss_5/emboss_pepwindow.xml index 92e8a00eade..60c0883eac9 100644 --- a/tools/emboss_5/emboss_pepwindow.xml +++ b/tools/emboss_5/emboss_pepwindow.xml @@ -21,8 +21,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_pepwindowall.xml b/tools/emboss_5/emboss_pepwindowall.xml index f8fb5f7fcd7..a6f4d26398c 100644 --- a/tools/emboss_5/emboss_pepwindowall.xml +++ b/tools/emboss_5/emboss_pepwindowall.xml @@ -21,8 +21,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_plotcon.xml b/tools/emboss_5/emboss_plotcon.xml index 10d3b149638..5a44b6bf9d8 100644 --- a/tools/emboss_5/emboss_plotcon.xml +++ b/tools/emboss_5/emboss_plotcon.xml @@ -21,8 +21,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_plotorf.xml b/tools/emboss_5/emboss_plotorf.xml index 170de4ddb87..050c95fb688 100644 --- a/tools/emboss_5/emboss_plotorf.xml +++ b/tools/emboss_5/emboss_plotorf.xml @@ -39,8 +39,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_polydot.xml b/tools/emboss_5/emboss_polydot.xml index 3eda259eaf8..268fa80bb9d 100644 --- a/tools/emboss_5/emboss_polydot.xml +++ b/tools/emboss_5/emboss_polydot.xml @@ -47,8 +47,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_preg.xml b/tools/emboss_5/emboss_preg.xml index efc38852601..3e8b479d8da 100644 --- a/tools/emboss_5/emboss_preg.xml +++ b/tools/emboss_5/emboss_preg.xml @@ -20,8 +20,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_prettyplot.xml b/tools/emboss_5/emboss_prettyplot.xml index 53d436b5918..3b5a8507653 100644 --- a/tools/emboss_5/emboss_prettyplot.xml +++ b/tools/emboss_5/emboss_prettyplot.xml @@ -112,8 +112,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_prettyseq.xml b/tools/emboss_5/emboss_prettyseq.xml index c8c25942ade..e1d59c9147c 100644 --- a/tools/emboss_5/emboss_prettyseq.xml +++ b/tools/emboss_5/emboss_prettyseq.xml @@ -52,8 +52,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_primersearch.xml b/tools/emboss_5/emboss_primersearch.xml index 0693e076540..7687eb3dc53 100644 --- a/tools/emboss_5/emboss_primersearch.xml +++ b/tools/emboss_5/emboss_primersearch.xml @@ -32,8 +32,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_revseq.xml b/tools/emboss_5/emboss_revseq.xml index 7d65f8e2a7c..eaad8ae383c 100644 --- a/tools/emboss_5/emboss_revseq.xml +++ b/tools/emboss_5/emboss_revseq.xml @@ -76,8 +76,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_seqmatchall.xml b/tools/emboss_5/emboss_seqmatchall.xml index cdc85944b66..a697dcb6162 100644 --- a/tools/emboss_5/emboss_seqmatchall.xml +++ b/tools/emboss_5/emboss_seqmatchall.xml @@ -53,8 +53,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_seqret.xml b/tools/emboss_5/emboss_seqret.xml index 3471b8dd2de..654603e6b97 100644 --- a/tools/emboss_5/emboss_seqret.xml +++ b/tools/emboss_5/emboss_seqret.xml @@ -69,8 +69,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_showfeat.xml b/tools/emboss_5/emboss_showfeat.xml index 82a958ed656..7c9394eefe0 100644 --- a/tools/emboss_5/emboss_showfeat.xml +++ b/tools/emboss_5/emboss_showfeat.xml @@ -122,8 +122,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_shuffleseq.xml b/tools/emboss_5/emboss_shuffleseq.xml index 23be68f742c..fb269fb98fa 100644 --- a/tools/emboss_5/emboss_shuffleseq.xml +++ b/tools/emboss_5/emboss_shuffleseq.xml @@ -61,8 +61,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_sigcleave.xml b/tools/emboss_5/emboss_sigcleave.xml index e5b3e24de24..5c41976acde 100644 --- a/tools/emboss_5/emboss_sigcleave.xml +++ b/tools/emboss_5/emboss_sigcleave.xml @@ -54,8 +54,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_sirna.xml b/tools/emboss_5/emboss_sirna.xml index 9b84066dfb1..3e0deab97c4 100644 --- a/tools/emboss_5/emboss_sirna.xml +++ b/tools/emboss_5/emboss_sirna.xml @@ -117,8 +117,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_sixpack.xml b/tools/emboss_5/emboss_sixpack.xml index 2aaea50d2b7..49d3f29c6b6 100644 --- a/tools/emboss_5/emboss_sixpack.xml +++ b/tools/emboss_5/emboss_sixpack.xml @@ -161,8 +161,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_skipseq.xml b/tools/emboss_5/emboss_skipseq.xml index 9dc0577d615..dddc257e20a 100644 --- a/tools/emboss_5/emboss_skipseq.xml +++ b/tools/emboss_5/emboss_skipseq.xml @@ -58,8 +58,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_splitter.xml b/tools/emboss_5/emboss_splitter.xml index 87a968487c5..c46102fe816 100644 --- a/tools/emboss_5/emboss_splitter.xml +++ b/tools/emboss_5/emboss_splitter.xml @@ -78,8 +78,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_supermatcher.xml b/tools/emboss_5/emboss_supermatcher.xml index 41360ecbd6b..5d1ccccd6a7 100644 --- a/tools/emboss_5/emboss_supermatcher.xml +++ b/tools/emboss_5/emboss_supermatcher.xml @@ -63,8 +63,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_syco.xml b/tools/emboss_5/emboss_syco.xml index 970d79ee242..e5baaec51a0 100644 --- a/tools/emboss_5/emboss_syco.xml +++ b/tools/emboss_5/emboss_syco.xml @@ -196,8 +196,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_tcode.xml b/tools/emboss_5/emboss_tcode.xml index 958aa37774e..beda491636d 100644 --- a/tools/emboss_5/emboss_tcode.xml +++ b/tools/emboss_5/emboss_tcode.xml @@ -43,8 +43,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_textsearch.xml b/tools/emboss_5/emboss_textsearch.xml index b7a8c12a93f..8d7839f50f1 100644 --- a/tools/emboss_5/emboss_textsearch.xml +++ b/tools/emboss_5/emboss_textsearch.xml @@ -57,8 +57,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_tmap.xml b/tools/emboss_5/emboss_tmap.xml index f1213ed525c..cc775ac1bd5 100644 --- a/tools/emboss_5/emboss_tmap.xml +++ b/tools/emboss_5/emboss_tmap.xml @@ -38,8 +38,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_tranalign.xml b/tools/emboss_5/emboss_tranalign.xml index 2aaa2adda26..5e7411567ce 100644 --- a/tools/emboss_5/emboss_tranalign.xml +++ b/tools/emboss_5/emboss_tranalign.xml @@ -83,8 +83,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_transeq.xml b/tools/emboss_5/emboss_transeq.xml index 2b72127c602..eeffcadc320 100644 --- a/tools/emboss_5/emboss_transeq.xml +++ b/tools/emboss_5/emboss_transeq.xml @@ -121,8 +121,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_trimest.xml b/tools/emboss_5/emboss_trimest.xml index 6bf52d0cade..e6349807813 100644 --- a/tools/emboss_5/emboss_trimest.xml +++ b/tools/emboss_5/emboss_trimest.xml @@ -91,8 +91,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_trimseq.xml b/tools/emboss_5/emboss_trimseq.xml index 6693d60cb0f..f9abe94f102 100644 --- a/tools/emboss_5/emboss_trimseq.xml +++ b/tools/emboss_5/emboss_trimseq.xml @@ -96,8 +96,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_twofeat.xml b/tools/emboss_5/emboss_twofeat.xml index 4c90ebae96b..6ddf2057761 100644 --- a/tools/emboss_5/emboss_twofeat.xml +++ b/tools/emboss_5/emboss_twofeat.xml @@ -129,8 +129,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ \ No newline at end of file diff --git a/tools/emboss_5/emboss_union.xml b/tools/emboss_5/emboss_union.xml index 2836f42df9c..ffac0550066 100644 --- a/tools/emboss_5/emboss_union.xml +++ b/tools/emboss_5/emboss_union.xml @@ -64,8 +64,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_vectorstrip.xml b/tools/emboss_5/emboss_vectorstrip.xml index f028e9e7953..37be239ea82 100644 --- a/tools/emboss_5/emboss_vectorstrip.xml +++ b/tools/emboss_5/emboss_vectorstrip.xml @@ -81,8 +81,10 @@ ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_water.xml b/tools/emboss_5/emboss_water.xml index d3d44add3ab..eeea0953ffe 100644 --- a/tools/emboss_5/emboss_water.xml +++ b/tools/emboss_5/emboss_water.xml @@ -65,8 +65,10 @@ The input datasets need to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_wobble.xml b/tools/emboss_5/emboss_wobble.xml index 2f41c6b9414..e7050ade0e3 100644 --- a/tools/emboss_5/emboss_wobble.xml +++ b/tools/emboss_5/emboss_wobble.xml @@ -39,8 +39,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_wordcount.xml b/tools/emboss_5/emboss_wordcount.xml index 4998e29656a..7ad5af4dfe8 100644 --- a/tools/emboss_5/emboss_wordcount.xml +++ b/tools/emboss_5/emboss_wordcount.xml @@ -34,8 +34,10 @@ The input dataset needs to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ diff --git a/tools/emboss_5/emboss_wordmatch.xml b/tools/emboss_5/emboss_wordmatch.xml index 2f82a53c15e..e6cc78c8ba6 100644 --- a/tools/emboss_5/emboss_wordmatch.xml +++ b/tools/emboss_5/emboss_wordmatch.xml @@ -73,8 +73,10 @@ The input datasets need to be sequences. ------ -**Citation** - +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_