Mercurial > repos > dereeper > ragoo
comparison ragoo.xml @ 10:83e37d6aee59 draft
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| author | dereeper |
|---|---|
| date | Mon, 26 Jul 2021 18:00:57 +0000 |
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| children |
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| 9:35f0fcf77bdf | 10:83e37d6aee59 |
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| 1 <tool id="ragoo" name="RaGOO" version="1.0"> | |
| 2 <description>Order and assign scaffolds</description> | |
| 3 <requirements> | |
| 4 <requirement type="package" version="3.0.2">intervaltree</requirement> | |
| 5 <requirement type="package" version="1.21.1">numpy</requirement> | |
| 6 <requirement type="package" version="2.21">minimap2</requirement> | |
| 7 </requirements> | |
| 8 | |
| 9 <command>perl ${__tool_directory__}/ragoo.pl $input $reference $output $output2 | |
| 10 </command> | |
| 11 | |
| 12 | |
| 13 <inputs> | |
| 14 <param format="fasta" name="input" type="data" label="Fasta file with contigs to be ordered and oriented: "/> | |
| 15 <param format="fasta" name="reference" type="data" label="Reference fasta file"/> | |
| 16 | |
| 17 </inputs> | |
| 18 | |
| 19 <outputs> | |
| 20 <data format="fasta" name="output" label="Fasta output of assigned scaffolds"/> | |
| 21 <data format="fasta" name="output2" label="Fasta output of assigned scaffolds (without Chr0)"/> | |
| 22 </outputs> | |
| 23 | |
| 24 <help> | |
| 25 For full documentation, please go to the RaGOO website : https://github.com/malonge/RaGOO | |
| 26 | |
| 27 </help> | |
| 28 | |
| 29 <citations> | |
| 30 <citation type="doi"> 10.1186/s13059-019-1829-6 </citation> | |
| 31 | |
| 32 </citations> | |
| 33 </tool> |