Split paired-end fastq by barcodes

Source: R/demultiplexFASTQ.R

Split paired-end fastq by barcodes

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.