add_target_matches: Add target matches

In multicrispr: Multi-locus multi-purpose Crispr/Cas design

Description

Add target matches

Usage

add_target_matches(
  spacers,
  targets,
  bsgenome,
  mismatches = 2,
  pam = "NGG",
  outdir = OUTDIR,
  verbose = TRUE
)

Arguments

spacers	GRanges
targets	GRanges
bsgenome	BSgenome
mismatches	number
pam	string
outdir	bowtie output directory
verbose	TRUE (default) or FALSE

Value

GRanges

Examples

require(magrittr)
file <- system.file('extdata/SRF.bed', package='multicrispr')
bsgenome <- BSgenome.Mmusculus.UCSC.mm10::BSgenome.Mmusculus.UCSC.mm10
targets0 <- bed_to_granges(file, 'mm10')
targets <- extend(targets0)
spacers <- find_spacers(targets, bsgenome, complement = FALSE, 
                        ontargetmethod = NULL, offtargetmethod = NULL)
spacers %<>% add_target_matches(targets, bsgenome)

multicrispr documentation built on Nov. 8, 2020, 5:10 p.m.