split_fastq {icetea}R Documentation

Split paired-end fastq by barcodes

Description

Split paired-end fastq by barcodes

Usage

split_fastq(expType, idx_name, outfile_R1, outfile_R2, fastq_R1, fastq_R2,
  max_mismatch)

Arguments

expType

character. experiment type (RAMPAGE, MAPCap or CAGE)

idx_name

character. barcode ID

outfile_R1

character. output fastq file : Read 1

outfile_R2

character. output fastq file : Read 2

fastq_R1

character. input fastq file : Read 1

fastq_R2

character. input fastq file : Read 2

max_mismatch

integer. max allowed mismatches

Value

kept reads corresponding to each barcode.


[Package icetea version 1.2.0 Index]