Mercurial > repos > dereeper > ragoo
comparison ragoo.xml @ 10:83e37d6aee59 draft
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author | dereeper |
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date | Mon, 26 Jul 2021 18:00:57 +0000 |
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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> |