Mercurial > repos > xuebing > sharplabtool
diff mytools/convertEnsembl.xml @ 7:f0dc65e7f6c0
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author | xuebing |
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date | Fri, 09 Mar 2012 19:59:07 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/mytools/convertEnsembl.xml Fri Mar 09 19:59:07 2012 -0500 @@ -0,0 +1,18 @@ +<tool id="convertens" name="convert ensembl"> + <description>to ucsc</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>