Make plots for interpretation of differential abundance statistics
Input
name:type
description
pattern
meta
:map
Groovy Map containing contrast information, to be passed as reference
and target levels, like ‘—reference_level meta.reference−−treatmentlevelmeta.target’
e.g. [ variable:‘treatment’, reference:‘treated’, control:‘saline’, blocking:” ]
differential_result
:file
statistic differential results
meta2
:map
Groovy Map containing information on experiment represented by max,
features and samples, at a minimum an id.
e.g. [ id:‘test’ ]
sample
:file
CSV or TSV-format sample sheet with sample metadata
feature_meta
:file
CSV or TSV-format feature (e.g. gene) metadata
assay_file
:file
CSV or TSV matrix file to use alongside differential statistics in
interpretation. Usually a normalised form.
Output
name:type
description
pattern
volcanos_png
meta
:map
Groovy Map containing contrast information
e.g. [ variable:‘treatment’, reference:‘treated’, control:‘saline’, blocking:” ]
*/png/volcano.png
:file
Meta-keyed tuple containing a PNG output for a volcano plot built from
the differential result table.
volcanos_html
meta
:map
Groovy Map containing contrast information
e.g. [ variable:‘treatment’, reference:‘treated’, control:‘saline’, blocking:” ]
*/html/volcano.html
:file
Meta-keyed tuple containing an HTML output for a volcano plot built
from the differential result table.
