add_seq {multicrispr} | R Documentation |
Add sequence to GRanges
add_seq(gr, bsgenome, verbose = FALSE, as.character = TRUE)
gr |
|
bsgenome |
|
verbose |
TRUE or FALSE (default) |
as.character |
TRUE (default) or FALSE |
# PE example #----------- require(magrittr) bsgenome <- BSgenome.Hsapiens.UCSC.hg38::BSgenome.Hsapiens.UCSC.hg38 gr <- char_to_granges(c(PRNP = 'chr20:4699600:+', # snp HBB = 'chr11:5227002:-', # snp HEXA = 'chr15:72346580-72346583:-', # del CFTR = 'chr7:117559593-117559595:+'), # ins bsgenome) (gr %<>% add_seq(bsgenome)) # TFBS example #------------- bsgenome <- BSgenome.Mmusculus.UCSC.mm10::BSgenome.Mmusculus.UCSC.mm10 bedfile <- system.file('extdata/SRF.bed', package='multicrispr') gr <- bed_to_granges(bedfile, 'mm10') (gr %<>% add_seq(bsgenome))