CRISPRseek (version 1.12.0)

uniqueREs: Output restriction enzymes that recognize only the gRNA cleavage sites

Description

For each identified gRNA, output restriction enzymes that recognize only the gRNA cleavage sites.

Usage

uniqueREs(REcutDetails, summary, offTargets, scanUpstream = 100, scanDownstream = 100, BSgenomeName)

Arguments

REcutDetails

REcutDetails stored in the REcutDetails.xls

summary

summary stored in the summary.xls

offTargets

offTargets stored in the offTargets.xls

scanUpstream

upstream offset from the gRNA start, default 100

scanDownstream

downstream offset from the gRNA end, default 100

BSgenomeName

BSgenome object. Please refer to available.genomes in BSgenome package. For example, BSgenome.Hsapiens.UCSC.hg19 for hg19, BSgenome.Mmusculus.UCSC.mm10 for mm10, BSgenome.Celegans.UCSC.ce6 for ce6, BSgenome.Rnorvegicus.UCSC.rn5 for rn5, BSgenome.Drerio.UCSC.danRer7 for Zv9, and BSgenome.Dmelanogaster.UCSC.dm3 for dm3

Value

returns the RE sites that recognize only the gRNA cleavage sites for each gRNA.

Details

References

See Also

Examples

    library("BSgenome.Hsapiens.UCSC.hg19")
    load(system.file("extdata", "ForTestinguniqueREs.RData",
            package = "CRISPRseek"))
    uniqueREs(results$REcutDetails, results$summary, results$offtarget,
	scanUpstream = 50,
        scanDownstream = 50, BSgenomeName = Hsapiens)