Mercurial > repos > iuc > deseq2

comparison macros.xml @ 43:621ddf5967d2 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/deseq2 commit 469558ddf5bc6249874fe5826637fd6ee81588cf
author iuc
date Tue, 18 Jul 2023 14:58:28 +0000
parents
children 1cb33de18af5
comparison
equal deleted inserted replaced
42:6ef2cba4e35a 43:621ddf5967d2
1 <macros>
2 <xml name="factor_repeat">
3 <repeat name="rep_factorName" title="Factor" min="1">
4 <param name="factorName" type="text" value="FactorName" label="Specify a factor name, e.g. effects_drug_x or cancer_markers"
5 help="Only letters, numbers and underscores will be retained in this field">
6 <sanitizer>
7 <valid initial="string.letters,string.digits"><add value="_" /></valid>
8 </sanitizer>
9 </param>
10 <repeat name="rep_factorLevel" title="Factor level" min="2" default="2">
11 <param name="factorLevel" type="text" value="FactorLevel" label="Specify a factor level, typical values could be 'tumor', 'normal', 'treated' or 'control'"
12 help="Only letters, numbers and underscores will be retained in this field">
13 <sanitizer>
14 <valid initial="string.letters,string.digits"><add value="_" /></valid>
15 </sanitizer>
16 </param>
17 <yield/>
18 </repeat>
19 </repeat>
20 </xml>
21 <xml name="requirements">
22 <requirements>
23 <requirement type="package" version="@DESEQ2_VERSION@">bioconductor-deseq2</requirement>
24 <!-- Optional dependency of tximport, needed to import kallisto results https://github.com/galaxyproject/usegalaxy-playbook/issues/161 -->
25 <requirement type="package" version="2.44.0">bioconductor-rhdf5</requirement>
26 <requirement type="package" version="1.28.0">bioconductor-tximport</requirement>
27 <requirement type="package" version="1.52.1">bioconductor-genomicfeatures</requirement>
28 <requirement type="package" version="1.20.3">r-getopt</requirement>
29 <requirement type="package" version="0.9.3">r-ggrepel</requirement>
30 <requirement type="package" version="3.1.3">r-gplots</requirement>
31 <requirement type="package" version="1.0.12">r-pheatmap</requirement>
32 <requirement type="package" version="0.2.21">r-rjson</requirement>
33 </requirements>
34 </xml>
35 <token name="@TOOL_VERSION@">2.11.40.8</token>
36 <token name="@DESEQ2_VERSION@">1.40.2</token>
37 <token name="@VERSION_SUFFIX@">0</token>
38 <token name="@PROFILE@">22.01</token>
39 <xml name="edam_ontology">
40 <edam_topics>
41 <edam_topic>topic_3308</edam_topic>
42 </edam_topics>
43 <edam_operations>
44 <edam_operation>operation_3800</edam_operation>
45 </edam_operations>
46 </xml>
47 <xml name="citations">
48 <citations>
49 <citation type="doi">10.1186/s13059-014-0550-8</citation>
50 </citations>
51 </xml>
52 <xml name="xrefs">
53 <xrefs>
54 <xref type="bio.tools">DESeq2</xref>
55 <xref type="bioconductor">deseq2</xref>
56 </xrefs>
57 </xml>
58 </macros>