extend_pe_to_gg: Extend prime editing target to find GG sites

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

Description

Extend prime editing target to find GG sites in accessible neighbourhood

Usage

extend_pe_to_gg(gr, nrt = 16, plot = FALSE)

Arguments

gr	target GRanges-class
nrt	n RT nucleotides (default 16, recommended 10-16)
plot	TRUE or FALSE (default)

Details

Extends each target range to the area in which to search for a prime editing GG duplet, as shown in the sketch below.

===============> —-GG———> —-GG———> ** <———GG— <———GG—- <===============

Value

GRanges-class

Examples

# 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)
    extend_pe_to_gg(gr, plot = TRUE)

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