Mercurial > repos > pjbriggs > motif_tools

comparison CountUniqueIDs.xml @ 0:b42da9dc4507 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded initial version 1.0.1.
author pjbriggs
date Wed, 21 Mar 2018 05:44:12 -0400
parents
children
comparison
equal deleted inserted replaced
-1:000000000000 0:b42da9dc4507
1 <?xml version="1.0" encoding="utf-8"?>
2 <tool id="gff_unique_count" name="Count unique seq in GFF" version="@VERSION@">
3 <description>Gives the non-redundant count of sequences</description>
4 <macros>
5 <import>motif_tools_macros.xml</import>
6 </macros>
7 <expand macro="requirements" />
8 <command><![CDATA[
9 perl $__tool_directory__/CountUniqueIDs.pl $input $output
10 ]]></command>
11 <inputs>
12 <param format="gff" name="input" type="data" label="GFF file" help="Select a GFF file."/>
13 </inputs>
14 <outputs>
15 <data format="txt" name="output" />
16 </outputs>
17
18 <help>
19 .. class:: infomark
20
21 **What it does**
22
23 This tool counts the number non-redundant sequence identifiers (seqname) in a GFF file. The tool was originally written to read a GFF file containing set of motif matches and report the number of sequences that contain one or more instances of the scanned motif.
24
25 ----
26
27 .. class:: infomark
28
29 **Options**
30
31 A GFF formated file is required.
32
33 ----
34
35 .. class:: infomark
36
37 **Credits**
38
39 This Galaxy tool has been developed within the Bioinformatics Core Facility at the University of Manchester. It runs the CountUniqueIDs.pl Perl script that was written by Ian Donaldson.
40
41 Please kindly acknowledge both this Galaxy tool and CountUniqueIDs.pl if you use it.
42 </help>
43
44 </tool>
45