filters FASTQ files
Project description
pyfastq_filter
Filter FASTQ Files.
Installation
pip3 install --user pyfastq_filter
Usage
Usage:
pyfastq_filter.py [-q i] [-l n] [-m m] [-o OUTNAME] FASTQ
Options:
-l --length=n minimum length to let through [default: 300]
-m --max-length=m maximum length to let through [default: infinity]
-q --quality=i minimum quality to let through [default: 10]
-o --outfile=FILE output filename, otherwise STDOUT [default: -]
Extract only FASTQ entries with sequence length >= 5000 and mean quality >= 12:
pyfastq_filter.py -q 12 -l 5000 example.fastq > example-q12-l5000.fastq
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