recipe seqfu

DNA sequence utilities

Homepage:

https://github.com/telatin/seqfu2/

License:

GPL-3.0-only

Recipe:

/seqfu/meta.yaml

Links:

biotools: seqfu, doi: 10.3390/bioengineering8050059

A collection of utilities to work with FASTX (FASTA or FASTQ) files that accept gzipped input. Tools to interleave and deinterleave, to calculate stats, and extract portions of sequence datasets.

package seqfu

(downloads) docker_seqfu

versions:
1.20.3-21.20.3-11.20.3-01.20.0-11.20.0-01.18.0-01.17.1-21.17.1-11.17.1-0

1.20.3-21.20.3-11.20.3-01.20.0-11.20.0-01.18.0-01.17.1-21.17.1-11.17.1-01.17.0-01.16.0-01.15.3-01.15.0-01.14.0-11.14.0-01.13.2-01.13.1-01.13.0-11.13.0-01.12.0-01.11.0-01.10.0-01.9.3-01.9.2-11.9.2-01.9.1-11.9.1-01.9.0-01.8.9-01.8.8-01.8.7-11.8.7-01.8.6-01.8.5-01.8.4-01.8.3-01.8.2-01.8.1-01.8.0-01.7.2-01.7.1-01.7.0-01.6.3-01.6.0-01.5.2-01.5.0-01.4.0-01.3.6-01.3.3-01.3.2-01.3.1-01.2.3-01.2.1-01.2.0-01.1.0-01.0.0-00.9.6-00.9.5-00.9.1-00.9.0-10.9.0-00.8.13-00.8.12-00.8.11-00.8.10-00.8.8-00.8.7-00.8.5-00.8.2-00.6.0-00.5.1-10.5.1-00.5.0-00.2.0-10.2.0-00.1.0-0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<2.0a0

depends pcre:

>=8.45,<9.0a0

depends zlib:

requirements:

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 seqfu

and update with::

   mamba update seqfu

To create a new environment, run:

mamba create --name myenvname seqfu

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/seqfu:<tag>

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

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