:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'seqfu' .. highlight: bash seqfu ===== .. conda:recipe:: seqfu :replaces_section_title: :noindex: DNA sequence utilities :homepage: https://github.com/telatin/seqfu2/ :license: GPL-3.0-only :recipe: /`seqfu `_/`meta.yaml `_ :links: biotools: :biotools:`seqfu`, doi: :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. .. conda:package:: seqfu |downloads_seqfu| |docker_seqfu| :versions: .. raw:: html
1.20.3-01.20.0-11.20.0-01.18.0-01.17.1-21.17.1-11.17.1-01.17.0-01.16.0-0 ``1.20.3-0``,  ``1.20.0-1``,  ``1.20.0-0``,  ``1.18.0-0``,  ``1.17.1-2``,  ``1.17.1-1``,  ``1.17.1-0``,  ``1.17.0-0``,  ``1.16.0-0``,  ``1.15.3-0``,  ``1.15.0-0``,  ``1.14.0-1``,  ``1.14.0-0``,  ``1.13.2-0``,  ``1.13.1-0``,  ``1.13.0-1``,  ``1.13.0-0``,  ``1.12.0-0``,  ``1.11.0-0``,  ``1.10.0-0``,  ``1.9.3-0``,  ``1.9.2-1``,  ``1.9.2-0``,  ``1.9.1-1``,  ``1.9.1-0``,  ``1.9.0-0``,  ``1.8.9-0``,  ``1.8.8-0``,  ``1.8.7-1``,  ``1.8.7-0``,  ``1.8.6-0``,  ``1.8.5-0``,  ``1.8.4-0``,  ``1.8.3-0``,  ``1.8.2-0``,  ``1.8.1-0``,  ``1.8.0-0``,  ``1.7.2-0``,  ``1.7.1-0``,  ``1.7.0-0``,  ``1.6.3-0``,  ``1.6.0-0``,  ``1.5.2-0``,  ``1.5.0-0``,  ``1.4.0-0``,  ``1.3.6-0``,  ``1.3.3-0``,  ``1.3.2-0``,  ``1.3.1-0``,  ``1.2.3-0``,  ``1.2.1-0``,  ``1.2.0-0``,  ``1.1.0-0``,  ``1.0.0-0``,  ``0.9.6-0``,  ``0.9.5-0``,  ``0.9.1-0``,  ``0.9.0-1``,  ``0.9.0-0``,  ``0.8.13-0``,  ``0.8.12-0``,  ``0.8.11-0``,  ``0.8.10-0``,  ``0.8.8-0``,  ``0.8.7-0``,  ``0.8.5-0``,  ``0.8.2-0``,  ``0.6.0-0``,  ``0.5.1-1``,  ``0.5.1-0``,  ``0.5.0-0``,  ``0.2.0-1``,  ``0.2.0-0``,  ``0.1.0-0`` .. raw:: html
:depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :depends libzlib: ``>=1.2.13,<1.3.0a0`` :depends pcre: ``>=8.45,<9.0a0`` :depends zlib: :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`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: (see `seqfu/tags`_ for valid values for ````) .. |downloads_seqfu| image:: https://img.shields.io/conda/dn/bioconda/seqfu.svg?style=flat :target: https://anaconda.org/bioconda/seqfu :alt: (downloads) .. |docker_seqfu| image:: https://quay.io/repository/biocontainers/seqfu/status :target: https://quay.io/repository/biocontainers/seqfu .. _`seqfu/tags`: https://quay.io/repository/biocontainers/seqfu?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html Link to this page ----------------- Render an |install-with-bioconda| badge with the following MarkDown:: [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/seqfu/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/seqfu/README.html