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From a FASTA file and a matching QUAL file, generates a FASTQ file. A minimal FASTQ file omits the redundant sequence label on the quality scores; the quality scores for a sequence are assumed to follow immediately after the sequence with which they are associated. The output FASTQ file will be generated in the specified output directory with the same name as the input FASTA file, suffixed with ‘.fastq’. A FASTQ file will be split into FASTA and QUAL files, and generated in the designated output directory.
Usage: convert_fastaqual_fastq.py [options]
Outputs a complete or minimal FASTQ file, which omits the redundant sequence label on the quality scores, or splits FASTQ file into matching FASTA/QUAL files.
Using the input files seqs.fna and seqs.qual, generate seqs.fastq in the fastq_files directory:
convert_fastaqual_fastq.py -f seqs.fna -q seqs.qual -o fastq_files/
Using input seqs.fastq generate fasta and qual files in fastaqual directory:
convert_fastaqual_fastq.py -c fastq_to_fastaqual -f seqs.fastq -o fastaqual