Extract some fastq reads from the beginning of the files
Project description
extractfq
1 Introduction
extractfq
is a tool to extract some fastq reads from the beginning of the files.
2 Installation
pip install extractfq
There will be a command extractfq
created under the same directory as your pip
command.
3 Usage
$ extractfq
usage: extractfq.py [-h] [-fq1 <str>] [-fq2 <str>] [-outfq1 <str>]
[-outfq2 <str>] [-size_required <float>] [-rl <int>] [-gz]
Extract some fastq reads from the beginning of the files. Author:
mengguanliang@foxmail.com
optional arguments:
-h, --help show this help message and exit
-fq1 <str> input fastq 1 file
-fq2 <str> input fastq 2 file
-outfq1 <str> output fastq 1 file
-outfq2 <str> output fastq 2 file
-size_required <float>
size required in Gigabase. [3]
-rl <int> read length required. discard the smaller ones, and
cut the longer ones to this length [None]
-gz gzip output. [False]
Author
Guanliang MENG
Citation
This script is part of the package MitoZ
, when you use the script in your work, please cite:
MitoZ: A toolkit for mitochondrial genome assembly, annotation and visualization with NGS data. Guangliang Meng, Yiyuan Li, Chentao Yang, Shanlin Liu (in manuscript)
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
extractfq-0.0.1.tar.gz
(16.3 kB
view hashes)