groupRotations: Calculates rotations based on each group

In PavlidisLab/markerGeneProfile: Cell type marker gene profiles in whole tissue samples

Description

Calculates rotations based on each group

Usage

groupRotations(exprData, genes, geneColName, groups, outDir,
  geneTransform = function(x) {     homologene::mouse2human(x)$humanGene
  })

Arguments

exprData	data.frame. Expression data. First collumns of the expression data should include gene names in the same format as the ones specified in the marker gene lists. Any other non-expression related fields must not be of type 'double'
genes	a named list containing marker gene lists of each cell type
geneColName	character. name of the column containing the gene names in the expression file
groups	a vector stating which groups each sample belongs to
outDir	if provided group rotations will be saved there
geneTransform	a function that will be applied to the gene list. the default behavior is to change mouse genes to human genes. set to NULL to keep the genes as they are

PavlidisLab/markerGeneProfile documentation built on July 11, 2019, 11:42 p.m.