recipe seqtk

Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format.

Homepage:

https://github.com/lh3/seqtk

Documentation:

https://github.com/lh3/seqtk/blob/v1.5/README.md

License:

MIT / MIT

Recipe:

/seqtk/meta.yaml

Links:

biotools: seqtk, usegalaxy-eu: seqtk_comp, usegalaxy-eu: seqtk_cutN, usegalaxy-eu: seqtk_dropse, usegalaxy-eu: seqtk_fqchk, usegalaxy-eu: seqtk_hety, usegalaxy-eu: seqtk_listhet, usegalaxy-eu: seqtk_mergefa, usegalaxy-eu: seqtk_mergepe, usegalaxy-eu: seqtk_mutfa, usegalaxy-eu: seqtk_randbase, usegalaxy-eu: seqtk_sample, usegalaxy-eu: seqtk_seq, usegalaxy-eu: seqtk_subseq, usegalaxy-eu: seqtk_telo, usegalaxy-eu: seqtk_trimfq

package seqtk

(downloads) docker_seqtk

versions:
1.5-1,  1.5-0,  1.4-3,  1.4-2,  1.4-1,  1.4-0,  1.3-6,  1.3-5,  1.3-4, 

1.5-1,  1.5-0,  1.4-3,  1.4-2,  1.4-1,  1.4-0,  1.3-6,  1.3-5,  1.3-4,  1.3-3,  1.3-2,  1.3-1,  1.3-0,  1.2-1,  1.2-0,  r93-0,  r82-1,  r82-0,  r75-0

depends libgcc:

>=13

depends libzlib:

>=1.3.1,<2.0a0

requirements:

additional platforms:
linux-aarch64,  osx-arm64

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install seqtk

and update with::

   mamba update seqtk

To create a new environment, run:

mamba create --name myenvname seqtk

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull quay.io/biocontainers/seqtk:<tag>

(see `seqtk/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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