compareAgainstReferencePerMethod {cTRAP} | R Documentation |
Compare single method
compareAgainstReferencePerMethod( method, input, reference, geneSize = 150, cellLines = NULL, cellLineMean = "auto", rankPerCellLine = FALSE )
method |
Character: one or more methods to compare data
( |
input |
|
reference |
Data matrix or |
geneSize |
Numeric: number of top up-/down-regulated genes to use as
gene sets to test for enrichment in reference data; if a 2-length numeric
vector, the first index is the number of top up-regulated genes and the
second index is the number of down-regulated genes used to create gene
sets; only used if |
cellLines |
Integer: number of unique cell lines |
cellLineMean |
Boolean: add a column with the mean score across cell
lines? If |
rankPerCellLine |
Boolean: rank results based on both individual cell
lines and mean scores across cell lines ( |
rankByAscending |
Boolean: rank values based on their ascending
( |
Data frame containing the results per method of comparison