Mercurial > repos > xuebing > sharplabtool
comparison tools/regVariation/substitutions.xml @ 0:9071e359b9a3
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| author | xuebing |
|---|---|
| date | Fri, 09 Mar 2012 19:37:19 -0500 |
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| -1:000000000000 | 0:9071e359b9a3 |
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| 1 <tool id="substitutions1" name="Fetch substitutions " version="1.0.0"> | |
| 2 <description> from pairwise alignments</description> | |
| 3 <command interpreter="python"> | |
| 4 substitutions.py | |
| 5 $input | |
| 6 $out_file1 | |
| 7 </command> | |
| 8 <inputs> | |
| 9 <param format="maf" name="input" type="data" label="Select pair-wise alignment data"/> | |
| 10 </inputs> | |
| 11 <outputs> | |
| 12 <data format="tabular" name="out_file1" metadata_source="input"/> | |
| 13 </outputs> | |
| 14 | |
| 15 <tests> | |
| 16 <test> | |
| 17 <param name="input" value="Interval2Maf_pairwise_out.maf"/> | |
| 18 <output name="out_file1" file="subs.out"/> | |
| 19 </test> | |
| 20 </tests> | |
| 21 <help> | |
| 22 | |
| 23 .. class:: infomark | |
| 24 | |
| 25 **What it does** | |
| 26 | |
| 27 This tool takes a pairwise MAF file as input and fetches substitutions per alignment block. | |
| 28 | |
| 29 ----- | |
| 30 | |
| 31 .. class:: warningmark | |
| 32 | |
| 33 **Note** | |
| 34 | |
| 35 Any block/s not containing exactly two sequences, will be omitted. | |
| 36 | |
| 37 </help> | |
| 38 </tool> |