prepareFinalSCE.Rd
This function is intended to be used within the einprot
workflows
and assumes that the data has been processed as outlined in these.
prepareFinalSCE(sce, baseFileName, featureCollections, expType)
A SingleCellExperiment
object.
Character scalar or NULL
, the base file name of
the output files. If NULL
, no result files are generated.
List of CharacterList
s with results
from gene set testing.
Character scalar, either "MaxQuant"
,
"ProteomeDiscoverer"
, "FragPipe"
, "DIANN"
or
"Spectronaut"
.
A SingleCellExperiment
object. If baseFileName
is
not NULL
, also save a text file with feature annotation columns
that will not be included in the final SCE object.