Mercurial > repos > iuc > gatk2

diff indel_realigner.xml @ 2:28b85e2409ce draft

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Uploaded
author bgruening
date Sat, 30 Nov 2013 10:36:47 -0500
parents c8752e31f496
children e67da4f2c9bf
line wrap: on
line diff
--- a/indel_realigner.xml	Tue Nov 26 06:10:20 2013 -0500
+++ b/indel_realigner.xml	Sat Nov 30 10:36:47 2013 -0500
@@ -87,26 +87,26 @@
       </when>
     </conditional>
     <param name="target_intervals" type="data" format="gatk_interval,bed,picard_interval_list" label="Restrict realignment to provided intervals" help="-targetIntervals,--targetIntervals &amp;lt;targetIntervals&amp;gt;" />
-    <repeat name="rod_bind" title="Binding for reference-ordered data" help="-known,--knownAlleles &amp;lt;knownAlleles&amp;gt;">
+    <repeat name="rod_bind" title="Known Variants" help="Using data sets of known variants (-known,--knownAlleles &amp;lt;knownAlleles&amp;gt;)">
         <conditional name="rod_bind_type">
-          <param name="rod_bind_type_selector" type="select" label="Binding Type">
+          <param name="rod_bind_type_selector" type="select" label="Variant Type">
             <option value="dbsnp" selected="True">dbSNP</option>
             <option value="snps">SNPs</option>
             <option value="indels">INDELs</option>
             <option value="custom">Custom</option>
           </param>
           <when value="dbsnp">
-              <param name="input_rod" type="data" format="vcf" label="ROD file" />
+              <param name="input_rod" type="data" format="vcf" label="Variant file (VCF format)" />
           </when>
           <when value="snps">
-              <param name="input_rod" type="data" format="vcf" label="ROD file" />
+              <param name="input_rod" type="data" format="vcf" label="Variant file (VCF format)" />
           </when>
           <when value="indels">
-              <param name="input_rod" type="data" format="vcf" label="ROD file" />
+              <param name="input_rod" type="data" format="vcf" label="Variant file (VCF format)" />
           </when>
           <when value="custom">
-              <param name="custom_rod_name" type="text" value="Unknown" label="ROD Name"/>
-              <param name="input_rod" type="data" format="vcf" label="ROD file" />
+              <param name="custom_rod_name" type="text" value="Unknown" label="Customer's variant file"/>
+              <param name="input_rod" type="data" format="vcf" label="Variant file (VCF format)" />
           </when>
         </conditional>
     </repeat>