Seqtk

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Description

Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format. It seamlessly parses both FASTA and FASTQ files which can also be optionally compressed by gzip.

Usage

Upcoming modulesystem change alert!

Due to large number of applications and their versions it is not practical to keep them explicitly listed at our wiki pages. Therefore an upgrade of modulefiles is underway. A feature of this upgrade will be the existence of default module for every application. This default choice does not need version number and it will load some (usually latest) version.

You can test the new version now by adding a line

source /cvmfs/software.metacentrum.cz/modulefiles/5.1.0/loadmodules

to your script before loading a module. Then, you can list all versions of seqtk and load default version of seqtk as

module avail seqtk/ # list available modules
module load seqtk   # load (default) module


If you wish to keep up to the current system, it is still possible. Simply list all modules by

module avail seqtk

and choose explicit version you want to use.

Documentation

https://github.com/lh3/seqtk

Homepage

https://github.com/lh3/seqtk