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Add Picard and fastqc tools to Main

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This commit is contained in:
Nate Coraor
2011-05-19 10:07:53 -04:00
parent 41446bb4b0
commit b8fd7dbe2e
1 changed files with 17 additions and 0 deletions
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tool_conf.xml.main
+17
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@@ -351,6 +351,8 @@
<tool file="fastx_toolkit/fastx_renamer.xml" />
<tool file="fastx_toolkit/fastx_reverse_complement.xml" />
<tool file="fastx_toolkit/fastx_trimmer.xml" />
<label text="FASTQ QC" id="fastq_qc" />
<tool file="rgenetics/rgFastQC.xml" />
</section>
<section name="NGS: Mapping" id="ngs_mapping">
<label text="Illumina" id="illumina"/>
@@ -394,6 +396,21 @@
<label text="Filtering" id="filtering" />
<tool file="ngs_rna/filter_transcripts_via_tracking.xml" />
</section>
<section name="NGS: Picard (beta)" id="picard_beta">
<label text="QC/Metrics for sam/bam" id="qcsambam"/>
<tool file="picard/picard_BamIndexStats.xml" />
<tool file="picard/rgPicardASMetrics.xml" />
<tool file="picard/rgPicardGCBiasMetrics.xml" />
<tool file="picard/rgPicardLibComplexity.xml" />
<tool file="picard/rgPicardInsertSize.xml" />
<tool file="picard/rgPicardHsMetrics.xml" />
<label text="bam/sam Cleaning" id="picard-clean" />
<tool file="picard/picard_AddOrReplaceReadGroups.xml" />
<tool file="picard/picard_ReorderSam.xml" />
<tool file="picard/picard_ReplaceSamHeader.xml" />
<tool file="picard/rgPicardFixMate.xml" />
<tool file="picard/rgPicardMarkDups.xml" />
</section>
<label text="RGENETICS" id="rgenetics" />
<section name="SNP/WGA: Data; Filters" id="rgdat">
<label text="Data: Import and upload" id="rgimport" />