GetRankResults: GetRankResults get list of gene ranks by t stat for fGSEA

In MattPM/scglmmr: Sample-level Single-cell Generalized Linear Multilevel Models in R

GetRankResults get list of gene ranks by t stat for fGSEA

Description

GetRankResults get list of gene ranks by t stat for fGSEA

Usage

GetRankResults(limma.fit.object.list, coefficient.number, contrast.name)

Arguments

limma.fit.object.list	the results returned by RunLimmaVoom. Use GetRankResultsRaw for results returned by dreamMixedModel
coefficient.number	the coefficient from the custom contrasts , check with head(result@coefficients)
contrast.name	this can be arbitrary and does not have to match the result coefficient name but is designed to force user to know which coefficient they are using from the fitted contrast model.

Value

list of gene ranks by t stat – use as argument to 'RunFgseaOnRankList'

Examples

## Not run: 
test = scglmmr::GetRankResults(limma.fit.object.list = bl, coefficient.number = 1, "test")

## End(Not run)

MattPM/scglmmr documentation built on April 26, 2024, 12:55 a.m.