getTSS {ELMER} | R Documentation |
getTSS to fetch GENCODE gene annotation (transcripts level) from Bioconductor package biomaRt If upstream and downstream are specified in TSS list, promoter regions of GENCODE gene will be generated.
getTSS(genome = "hg38", TSS = list(upstream = NULL, downstream = NULL))
genome |
Which genome build will be used: hg38 (default) or hg19. |
TSS |
A list. Contains upstream and downstream like TSS=list(upstream, downstream). When upstream and downstream is specified, coordinates of promoter regions with gene annotation will be generated. |
GENCODE gene annotation if TSS is not specified. Coordinates of GENCODE gene promoter regions if TSS is specified.
Lijing Yao (maintainer: lijingya@usc.edu)
# get GENCODE gene annotation (transcripts level) ## Not run: getTSS <- getTSS() getTSS <- getTSS(genome.build = "hg38", TSS=list(upstream=1000, downstream=1000)) ## End(Not run)