mapNamedRangesToSets: Map named ranges to corresponding set of named ranges

In BaderLab/netDx: Network-based patient classifier

Description

Map named ranges to corresponding set of named ranges

Usage

mapNamedRangesToSets(gr, rangeList, verbose = FALSE)

Arguments

gr	(GRanges) named ranged to be grouped
rangeList	(list) sets of range names
verbose	(logical) print detailed messages

Details

Example application is when we have named ranges each corresponding to genes or regulatory elements, and we wish to group these ranges based on metabolic pathway.

Value

RangeList. keys are names of rangeList, values are GRanges

Examples

data(genes,pathwayList); 
gene_GR<-GenomicRanges::GRanges(genes$chrom,
  IRanges::IRanges(genes$txStart,genes$txEnd),
		name=genes$name2)
path_GRList <- mapNamedRangesToSets(gene_GR,pathwayList)

BaderLab/netDx documentation built on Sept. 26, 2021, 9:13 a.m.