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comparison edger.xml @ 15:5bf899c13979 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/edger commit 025a0d70be99e50ae89ad78a70cc8c51571ea1a2
author iuc
date Wed, 22 Nov 2023 03:57:37 +0000
parents 070900306913
children
comparison
equal deleted inserted replaced
14:070900306913 15:5bf899c13979
2 <description> 2 <description>
3 Perform differential expression of count data 3 Perform differential expression of count data
4 </description> 4 </description>
5 <macros> 5 <macros>
6 <token name="@TOOL_VERSION@">3.36.0</token> 6 <token name="@TOOL_VERSION@">3.36.0</token>
7 <token name="@VERSION_SUFFIX@">3</token> 7 <token name="@VERSION_SUFFIX@">4</token>
8 </macros> 8 </macros>
9 <edam_topics> 9 <edam_topics>
10 <edam_topic>topic_3308</edam_topic> 10 <edam_topic>topic_3308</edam_topic>
11 </edam_topics> 11 </edam_topics>
12 <edam_operations> 12 <edam_operations>
692 </repeat> 692 </repeat>
693 <param name="contrastOpt" value="file"/> 693 <param name="contrastOpt" value="file"/>
694 <param name="cinfo" value="contrasts_file.txt"/> 694 <param name="cinfo" value="contrasts_file.txt"/>
695 <param name="formula" value="~ 0 + Genotype + Batch"/> 695 <param name="formula" value="~ 0 + Genotype + Batch"/>
696 <param name="normalisationOption" value="TMM"/> 696 <param name="normalisationOption" value="TMM"/>
697 <output_collection name="outTables" count="2"> 697 <output_collection name="outTables" count="3">
698 <element name="edgeR_Mut-WT" ftype="tabular"> 698 <element name="edgeR_Mut-WT" ftype="tabular">
699 <assert_contents> 699 <assert_contents>
700 <has_text_matching expression="GeneID.*logFC.*logCPM.*F.*PValue.*FDR"/> 700 <has_text_matching expression="GeneID.*logFC.*logCPM.*F.*PValue.*FDR"/>
701 <has_text_matching expression="11304.*0.4584"/> 701 <has_text_matching expression="11304.*0.4584"/>
702 </assert_contents> 702 </assert_contents>
703 </element> 703 </element>
704 <element name="edgeR_WT-Mut" ftype="tabular"> 704 <element name="edgeR_WT-Mut" ftype="tabular">
705 <assert_contents>
706 <has_text_matching expression="GeneID.*logFC.*logCPM.*F.*PValue.*FDR"/>
707 </assert_contents>
708 </element>
709 <element name="edgeR_(2*Mut_3*WT)-WT" ftype="tabular">
705 <assert_contents> 710 <assert_contents>
706 <has_text_matching expression="GeneID.*logFC.*logCPM.*F.*PValue.*FDR"/> 711 <has_text_matching expression="GeneID.*logFC.*logCPM.*F.*PValue.*FDR"/>
707 </assert_contents> 712 </assert_contents>
708 </element> 713 </element>
709 </output_collection> 714 </output_collection>