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modification to default tool_conf.xml

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This commit is contained in:
Anton Nekrutenko
2014-10-23 16:37:58 +00:00
parent b3f2e5d6fd
commit fa11d10c8b
1 changed files with 0 additions and 69 deletions
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config/tool_conf.xml.sample
-69
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@@ -104,10 +104,6 @@
<tool file="maf/maf_reverse_complement.xml" />
<tool file="maf/maf_filter.xml" />
</section>
<section id="scores" name="Get Genomic Scores">
<tool file="filters/wiggle_to_simple.xml" />
<tool file="stats/aggregate_binned_scores_in_intervals.xml" />
</section>
<section id="stats" name="Statistics">
<tool file="stats/gsummary.xml" />
<tool file="filters/uniq.xml" />
@@ -115,71 +111,6 @@
<section id="plots" name="Graph/Display Data">
<tool file="plotting/bar_chart.xml" />
<tool file="plotting/boxplot.xml" />
<tool file="visualization/LAJ.xml" />
<tool file="maf/vcf_to_maf_customtrack.xml" />
</section>
<section id="hyphy" name="Evolution">
<tool file="evolution/codingSnps.xml" />
<tool file="evolution/add_scores.xml" />
</section>
<section id="motifs" name="Motif Tools">
<tool file="meme/meme.xml" />
<tool file="meme/fimo.xml" />
</section>
<section id="NGS_QC" name="NGS: QC and manipulation">
<label id="fastqcsambam" text="FastQC: fastq/sam/bam" />
<label id="illumina" text="Illumina fastq" />
<label id="454" text="Roche-454 data" />
<label id="solid" text="AB-SOLiD data" />
<tool file="next_gen_conversion/solid2fastq.xml" />
<tool file="solid_tools/solid_qual_stats.xml" />
<tool file="solid_tools/solid_qual_boxplot.xml" />
<label id="generic_fastq" text="Generic FASTQ manipulation" />
<label id="fastx_toolkit" text="FASTX-Toolkit for FASTQ data" />
</section>
<!--
Keep this section commented until it includes tools that
will be hosted on test/main. The velvet wrappers have been
included in the distribution but will not be hosted on our
public servers for the current time.
<section name="NGS: Assembly" id="ngs_assembly">
<label text="Velvet" id="velvet"/>
<tool file="sr_assembly/velvetg.xml" />
<tool file="sr_assembly/velveth.xml" />
</section>
-->
<section id="solexa_tools" name="NGS: Mapping">
<tool file="sr_mapping/bfast_wrapper.xml" />
<tool file="sr_mapping/PerM.xml" />
<tool file="sr_mapping/srma_wrapper.xml" />
<tool file="sr_mapping/mosaik.xml" />
</section>
<section id="ngs-rna-tools" name="NGS: RNA Analysis">
<label id="rna_seq" text="RNA-seq" />
<label id="filtering" text="Filtering" />
</section>
<section id="samtools" name="NGS: SAM Tools">
</section>
<section id="ngs-simulation" name="NGS: Simulation">
<tool file="ngs_simulation/ngs_simulation.xml" />
</section>
<section id="hgv" name="Phenotype Association">
<tool file="evolution/codingSnps.xml" />
<tool file="evolution/add_scores.xml" />
<tool file="phenotype_association/sift.xml" />
<tool file="phenotype_association/linkToGProfile.xml" />
<tool file="phenotype_association/linkToDavid.xml" />
<tool file="phenotype_association/ldtools.xml" />
<tool file="phenotype_association/pass.xml" />
<tool file="phenotype_association/gpass.xml" />
<tool file="phenotype_association/beam.xml" />
<tool file="phenotype_association/lps.xml" />
<tool file="phenotype_association/master2pg.xml" />
</section>
</toolbox>