Mercurial > repos > bitlab > imsame
comparison IMSAME/IMSAME.xml @ 1:7fff03d777dd draft
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| author | bitlab |
|---|---|
| date | Mon, 17 Dec 2018 12:11:52 -0500 |
| parents | 762009a91895 |
| children |
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| 0:762009a91895 | 1:7fff03d777dd |
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| 1 <tool id="IMSAME" name="IMSAME"> | |
| 2 <description>A Pairwise Incremental Multi-Staged Alignment Method for Metagenomes Comparison</description> | |
| 3 <inputs> | |
| 4 <param name="query" type="data" format="fasta" label="Query metagenome" help="Query sequence file in fasta format" /> | |
| 5 <param name="db" type="data" format="fasta" label="Reference metagenome" help="Reference sequence file in fasta format" /> | |
| 6 <param name="evalue" type="text" size="30" value="10e-10" label="Evalue" help="Evalue for filtering HSPs" /> | |
| 7 <param name="coverage" type="float" value="0.5" label="Coverage" help="Minimum coverage to accept an alignment" /> | |
| 8 <param name="identity" type="float" value="0.5" label="Identity" help="Minimum identity to accept an alignment" /> | |
| 9 <param name="kmer" type="integer" value="12" label="Word size" help="Word size for heuristicly exploring the search space" /> | |
| 10 </inputs> | |
| 11 <command>/home/galaxy-bitlab/galaxy/tools/IMSAME/bin/IMSAME -query $query -db $db -evalue $evalue -coverage $coverage -identity $identity -kmer $kmer -out $output --full</command> | |
| 12 <outputs> | |
| 13 <data name="output" type="txt" label="Output alignments"/> | |
| 14 </outputs> | |
| 15 </tool> |