read1.fq / read2.fq — FASTQ files from read 1 and read 2. Both unzipped and gzip-compressed files are supported. barcode_pattern — pattern of barcodes starting from the 5-prime end, with N representing a barcode base and X representing a skipped base (similar notation to UMI-tools). For example, NanoSeq uses a 3-base barcode followed by 4 constant bases, so the pattern should be NNNXXXX …