| Previous changeset 27:d027d1f4984e (2021-06-28) Next changeset 29:cd9874cb9019 (2021-11-29) |
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Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/deseq2 commit a3c52d23c261ef0bd0cc4c3d59900e108ca3f67e" |
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modified:
deseq2.xml deseq2_macros.xml |
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| diff -r d027d1f4984e -r 7ff33c2d525b deseq2.xml --- a/deseq2.xml Mon Jun 28 05:14:25 2021 +0000 +++ b/deseq2.xml Fri Nov 19 21:03:55 2021 +0000 |
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| @@ -193,9 +193,9 @@ help=" DESeq2 performs independent filtering by default using the mean of normalized counts as a filter statistic" /> </section> <section name="output_options" title="Output options"> - <param name="output_selector" type="select" multiple="True" display="checkboxes" label="Output selector"> + <param name="output_selector" type="select" multiple="True" optional="true" display="checkboxes" label="Output selector"> <option value="pdf" selected="True">Generate plots for visualizing the analysis results</option> - <option value="normCounts">Output rLog normalized table</option> + <option value="normCounts">Output normalised counts</option> <option value="normVST">Output VST normalized table</option> <option value="normRLog">Output rLog normalized table</option> <option value="many_contrasts">Output all levels vs all levels of primary factor (use when you have >2 levels for primary factor)</option> |
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| diff -r d027d1f4984e -r 7ff33c2d525b deseq2_macros.xml --- a/deseq2_macros.xml Mon Jun 28 05:14:25 2021 +0000 +++ b/deseq2_macros.xml Fri Nov 19 21:03:55 2021 +0000 |
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| @@ -20,20 +20,20 @@ </xml> <xml name="requirements"> <requirements> - <requirement type="package" version="1.22.1">bioconductor-deseq2</requirement> + <requirement type="package" version="1.34.0">bioconductor-deseq2</requirement> <!-- Optional dependency of tximport, needed to import kallisto results https://github.com/galaxyproject/usegalaxy-playbook/issues/161 --> - <requirement type="package" version="2.26.2">bioconductor-rhdf5</requirement> - <requirement type="package" version="1.10.0">bioconductor-tximport</requirement> - <requirement type="package" version="1.34.1">bioconductor-genomicfeatures</requirement> - <requirement type="package" version="1.20.2">r-getopt</requirement> - <requirement type="package" version="0.8.0">r-ggrepel</requirement> - <requirement type="package" version="3.0.1">r-gplots</requirement> - <requirement type="package" version="1.0.10">r-pheatmap</requirement> + <requirement type="package" version="2.38.0">bioconductor-rhdf5</requirement> + <requirement type="package" version="1.22.0">bioconductor-tximport</requirement> + <requirement type="package" version="1.46.1">bioconductor-genomicfeatures</requirement> + <requirement type="package" version="1.20.3">r-getopt</requirement> + <requirement type="package" version="0.9.1">r-ggrepel</requirement> + <requirement type="package" version="3.1.1">r-gplots</requirement> + <requirement type="package" version="1.0.12">r-pheatmap</requirement> <requirement type="package" version="0.2.20">r-rjson</requirement> </requirements> </xml> - <token name="@TOOL_VERSION@">2.11.40.6</token> - <token name="@SUFFIX_VERSION@">2</token> + <token name="@TOOL_VERSION@">2.11.40.7</token> + <token name="@SUFFIX_VERSION@">0</token> <xml name="edam_ontology"> <edam_topics> <edam_topic>topic_3308</edam_topic> |