# HG changeset patch
# User richjp
# Date 1413204611 14400
# Node ID 9b60d5a2c3131a71e0de370d0bc91ea10266ac40
# Parent  0fee75e8a18ebda6f8a7b0c2d72fab88065d324f
Uploaded

diff -r 0fee75e8a18e -r 9b60d5a2c313 cloudmap_zf_hom_mapping/cloudmap_zf_hom_mapping.xml
--- a/cloudmap_zf_hom_mapping/cloudmap_zf_hom_mapping.xml	Mon Oct 13 08:49:26 2014 -0400
+++ b/cloudmap_zf_hom_mapping/cloudmap_zf_hom_mapping.xml	Mon Oct 13 08:50:11 2014 -0400
@@ -1,4 +1,4 @@
-<tool id="cloudmap_zf_hom_mapping" name="cloudmap_zf_hom_mapping" version="0.01">
+<tool id="CloudMap: zebrafish homozygosity mapping" name="CloudMap: zebrafish homozygosity mapping" version="0.01">
 <description>Map a zebrafish mutant using bulk sergeant homozygosity mapping</description>
 <requirements>
       <requirement type="package" version="9.10">ghostscript</requirement>
@@ -655,10 +655,10 @@
 <help>
 
 
-**What it Does**
-
-This tool is part of an update to the CloudMap pipeline (Minevich et al. 2012) to incorporate homozygosity mapping in zebrafish. This tool facilitates the mapping of zebrafish mutants from WGS or RNA-Seq data using bulk segregant homozygosity mapping. As input it takes a VCF list of variants (usually quality filtered for Q200 with WT SNPs/indels removed). This file is produced when running the CloudMap zebrafish pipeline. It plots an adjusted homozygosity ratio such that a high ratio indicates mapping region. It outputs an HTML file with combined and individual chromosome plots as PDFs. The adjusted homozygosity ratio is calculated as described in:
-
+**What it Does**
+
+This tool is part of an update to the CloudMap pipeline (Minevich et al. 2012) to incorporate homozygosity mapping in zebrafish. This tool facilitates the mapping of zebrafish mutants from WGS or RNA-Seq data using bulk segregant homozygosity mapping. As input it takes a VCF list of variants (usually quality filtered for Q200 with WT SNPs/indels removed). This file is produced when running the CloudMap zebrafish pipeline. It plots an adjusted homozygosity ratio such that a high ratio indicates mapping region. It outputs an HTML file with combined and individual chromosome plots as PDFs. The adjusted homozygosity ratio is calculated as described in:
+
 IN SUBMISSION
 
 **Script**