Mercurial > repos > xuebing > ensembl_to_ucsc

changeset 0:4ac24aaed8d6

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Uploaded
author xuebing
date Sat, 31 Mar 2012 22:57:57 -0400
parents
children 7c1a351ad733
files ensembl_to_ucsc.xml
diffstat 1 files changed, 18 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/ensembl_to_ucsc.xml	Sat Mar 31 22:57:57 2012 -0400
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+<tool id="ensembl_to_ucsc" name="ensembl_to_ucsc">
+  <description>convert interval format</description>
+  <command interpreter="python">convertEnsembl.py $input $output $skip  </command>
+  <inputs>
+    <param name="input" format="interval" type="data" label="Original file"/>
+    <param name="skip" size="10" type="integer" value="0" label="Number of beginning lines to skip"/>
+  </inputs>
+  <outputs>
+    <data format="input" name="output" />
+  </outputs>
+  <help>
+
+**What it does**
+
+This tool convert ensembl based interval file to ucsc format: add 'chr' to chromosome number (column 1), and replace '1' and '-1' with '+' and '-' in column 6, respectively. 
+
+ </help>
+</tool>