add_seq {multicrispr} | R Documentation

## Add sequence to GRanges

### Description

Add sequence to GRanges

### Usage

    add_seq(gr, bsgenome, verbose = FALSE, as.character = TRUE)

### Arguments

`gr` | `GRanges-class`
`bsgenome` | `BSgenome-class`
`verbose` | TRUE or FALSE (default)
`as.character` | TRUE (default) or FALSE

### 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)
       (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))

[Package multicrispr version 1.4.3 Index]