Mercurial > repos > richjp > cloudmap_zebrafish_hom_mapping

diff cloudmap_zf_hom_mapping/tool_dependencies.xml @ 0:b4ac1dd0f802 draft

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author richjp
date Fri, 10 Oct 2014 12:31:23 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/cloudmap_zf_hom_mapping/tool_dependencies.xml	Fri Oct 10 12:31:23 2014 -0400
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+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="ghostscript" version="9.10">
+        <repository changeset_revision="9345d2740f0c" name="package_ghostscript_9_10" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="graphicsmagick" version="1.3.18">
+        <repository changeset_revision="2fd4eb971ba5" name="package_graphicsmagick_1_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+    </package>
+        <readme>
+           
+**What it Does**
+
+This tool takes as input a VCF list of SNPs from pooled bulk-segregant zebrafish WGS or RNASeq data. This VCF should be quality filtered (usually Q200) and have had wild type SNPs/indels subtracted. This file is generated when running the zebrafish WGS or RNA-seq CloudMap workflows. It plots adjusted homozygosity ratios as in ores to determine the likely position of a causative mutation. This tool was created by Richard J. Poole (UCL) using TooolFactory and is described in:
+
+IN PRESS
+
+       </readme>
+</tool_dependency>