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
Project details
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
pyfastq_filter-0.4.0.tar.gz
(1.8 kB
view hashes)
Built Distribution
Close
Hashes for pyfastq_filter-0.4.0-py3-none-any.whl
Algorithm | Hash digest | |
---|---|---|
SHA256 | 3a1cca927994a22f8ab1f2bd443f6418431908590b8246e8b3f89e7cf87eb6b3 |
|
MD5 | f226e32bfc7bd0c53878d6b1f27503bd |
|
BLAKE2b-256 | 5ff2ebd842f64154fb3eba531536cacc7f038868c81cf3ff6ec546bc16bb9bc7 |