Mercurial > repos > mbernt > longorf
comparison longORF.xml @ 0:ec898924d8c7 draft
planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/blob/master/tools/longorf/ commit 8e118a4d24047e2c62912b962e854f789d6ff559
author | mbernt |
---|---|
date | Wed, 20 Jun 2018 11:02:06 -0400 |
parents | |
children | 4952f1ece60b |
comparison
equal
deleted
inserted
replaced
-1:000000000000 | 0:ec898924d8c7 |
---|---|
1 <tool id="longORF" name="Obtain longest ORFs" version="0.1.0"> | |
2 <description> in six-frame translations</description> | |
3 <command><![CDATA[ | |
4 python $__tool_directory__/getLongestORF.py $input $output_longestORF $output_ORFs | |
5 ]]> | |
6 </command> | |
7 <inputs> | |
8 <param name="input" format="fasta" type="data" label="sequences"/> | |
9 </inputs> | |
10 <outputs> | |
11 <data name="output_longestORF" format="fasta"/> | |
12 <data name="output_ORFs" format="tabular"/> | |
13 </outputs> | |
14 | |
15 <tests> | |
16 <test> | |
17 <param name="input" value="test_input.fasta"/> | |
18 <output name="output_longestORF" file="test_output.fasta"/> | |
19 <output name="output_ORFs" file="test_output.tab"/> | |
20 </test> | |
21 </tests> | |
22 <help><![CDATA[ | |
23 **What it does** | |
24 | |
25 This tool identifies the longest Open Reading Frames within the six-frame translations of a set of sequences. | |
26 | |
27 **Input** | |
28 | |
29 It takes an amino acid fasta file with all open reading frames (+ and - strand) listed by the correspondng transcript. The tool is designed to process the output of the Galaxy tool "getorf" from the EMBOSS package. | |
30 | |
31 **Output** | |
32 | |
33 For each transcript, the respected longest ORF is identified and listed in fasta format. Furthermore, table with information about seqID, start, end, length, orientation, longest for all ORFs is given.]]> | |
34 </help> | |
35 </tool> |