runs a differential expression analysis with Limma
Input
name:type
description
pattern
meta:map
Groovy Map containing contrast information. This can be used at the
workflow level to pass optional parameters to the module, e.g.
[ id:‘contrast1’, blocking:‘patient’ ] passed in as ext.args like:
‘—blocking_variable $meta.blocking’.
contrast_variable:string
The column in the sample sheet that should be used to define groups for
comparison
reference:string
The value within the contrast_variable column of the sample sheet that
should be used to derive the reference samples
target:string
The value within the contrast_variable column of the sample sheet that
should be used to derive the target samples
meta2:map
Groovy map containing study-wide metadata related to the sample sheet
and matrix
samplesheet:file
Sample sheet file
intensities:file
Raw TSV or CSV format expression matrix with probes by row and samples
by column
Output
name:type
description
pattern
results
meta:file
TSV-format table of differential expression information as output by Limma
*.limma.results.tsv
*.limma.results.tsv:file
TSV-format table of differential expression information as output by Limma
