getUsedBarcodes: Create barcodes from the p5 and p7 index used for each...
In GUIDEseq: GUIDE-seq analysis pipeline

Description Usage Arguments Value Note Author(s) Examples

Create barcodes from the p5 and p7 index for assigning reads to each barcode

1 2	getUsedBarcodes(p5.index, p7.index, header = FALSE, reverse.p7 = TRUE, reverse.p5 = FALSE, outputFile)

`p5.index`	A text file with one p5 index sequence per line
`p7.index`	A text file with one p7 index sequence per line
`header`	Indicate whether there is a header in the p5.index and p7.index files. Default to FALSE
`reverse.p7`	Indicate whether to reverse p7 index, default to TRUE for standard GUIDE-seq experiments
`reverse.p5`	Indicate whether to reverse p5 index, default to FALSE for standard GUIDE-seq experiments
`outputFile`	Give a name to the output file where the generated barcodes are written

DNAStringSet

Create barcode file to be used to bin the reads sequenced in a pooled lane

Lihua Julie Zhu

    p7 <- system.file("extdata", "p7.index",
           package = "GUIDEseq") 
    p5 <- system.file("extdata", "p5.index",
           package = "GUIDEseq")
    outputFile <- "usedBarcode" 
    getUsedBarcodes(p5.index = p5, p7.index = p7, reverse.p7 = TRUE,
        reverse.p5 = FALSE, outputFile = outputFile)