Mercurial > repos > iuc > deseq2
diff deseq2.xml @ 25:de44f8eff84a draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/deseq2 commit 9eb6d07510ccf27d6499172d62c81661078ec57b"
| author | iuc |
|---|---|
| date | Wed, 25 Nov 2020 18:36:55 +0000 |
| parents | 71bacea10eee |
| children | 6a3a025714d3 |
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--- a/deseq2.xml Sat Feb 29 17:08:08 2020 -0500 +++ b/deseq2.xml Wed Nov 25 18:36:55 2020 +0000 @@ -176,7 +176,7 @@ label="Output VST normalized table" /> <param name="many_contrasts" type="boolean" truevalue="1" falsevalue="0" checked="false" label="Output all levels vs all levels of primary factor (use when you have >2 levels for primary factor)" - help=" DESeq2 performs independent filtering by default using the mean of normalized counts as a filter statistic" /> + help=" DESeq2 performs independent filtering by default using the mean of normalized counts as a filter statistic" /> <param name="esf" type="select" label="(Optional) Method for estimateSizeFactors" help="Method for estimation: either 'ratio', 'poscounts', or 'iterate'. 'ratio' uses the standard median ratio method introduced in DESeq. The size factor is the median ratio of the sample over a 'pseudosample': for each gene, the geometric mean of all samples. @@ -203,10 +203,10 @@ <param name="outlier_filter_off" type="boolean" truevalue="1" falsevalue="0" checked="false" label="Turn off outliers filtering (only affects with >2 replicates)" help="When there are more than 2 replicates for a given sample, the DESeq2 will automatically - filter genes which contain a Cook’s distance above a cutoff" /> + filter genes which contain a Cook’s distance above a cutoff" /> <param name="auto_mean_filter_off" type="boolean" truevalue="1" falsevalue="0" checked="false" label="Turn off independent filtering" - help=" DESeq2 performs independent filtering by default using the mean of normalized counts as a filter statistic" /> + help=" DESeq2 performs independent filtering by default using the mean of normalized counts as a filter statistic" /> </inputs> <outputs> <data name="deseq_out" format="tabular" label="DESeq2 result file on ${on_string}">