Mercurial > repos > anton > vcf2tsv

changeset 1:2826332c3153 draft default tip

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Uploaded
author anton
date Tue, 10 Jun 2014 10:45:59 -0400
parents 8045bf0acb6e
children
files vcf2tsv.xml
diffstat 1 files changed, 9 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/vcf2tsv.xml	Wed May 07 15:19:35 2014 -0400
+++ b/vcf2tsv.xml	Tue Jun 10 10:45:59 2014 -0400
@@ -1,18 +1,18 @@
-<tool id="vcf2tsv" name="VCF2TSV:" version="0.0.1">
+<tool id="vcf2tsv" name="VCFtoTab-delimited:" version="0.0.1">
 <requirements>
     <requirement type="package" version="586c5ae5d57a38dae6b32ea831fb1f7cfa14c9bd">vcflib</requirement>
 </requirements>
   <description>Convert VCF data into TAB-delimited format</description>
   <command>vcf2tsv ${g_option} -n "${null_filler}" "${input}" > "${out_file1}"</command>
   <inputs>
-    <param name="g_option" type="boolean" checked="true" truevalue="-g" falsevalue="" label="Report data per sample"/>
-    <param name="null_filler" type="select" label="Fill empty fiels with" >
+    <param format="vcf" name="input" type="data" label="Select VCF dataset to convert"/>
+    <param name="g_option" type="boolean" checked="true" truevalue="-g" falsevalue="" label="Report data per sample" help="-g option"/>
+    <param name="null_filler" type="select" label="Fill empty fields with" help="-n option" >
       <option value="">Nothing</option>
       <option value=".">.</option>
       <option value="*">*</option>
       <option value="NULL">NULL</option>
     </param>
-    <param format="vcf" name="input" type="data" label="From"/>
   </inputs>
   <outputs>
     <data format="tabular" name="out_file1" />
@@ -34,7 +34,11 @@
   <help>
 
 Converts stdin or given VCF file to tab-delimited format, using null string to replace empty values in the table.
-Specifying -g will output one line per sample with genotype information.
+Specifying "**Report data per sample**" (-g) will output one line per sample with genotype information.
+
+----
+
+Vcf2Tsv is a part of VCFlib toolkit developed by Erik Garrison (https://github.com/ekg/vcflib).    
 
 </help>
 </tool>