:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'htseq' .. highlight: bash htseq ===== .. conda:recipe:: htseq :replaces_section_title: :noindex: HTSeq is a Python library to facilitate processing and analysis of data from high\-throughput sequencing \(HTS\) experiments. :homepage: https://github.com/htseq/htseq :license: GPL / GPL-3.0-only :recipe: /`htseq `_/`meta.yaml `_ :links: biotools: :biotools:`htseq`, usegalaxy-eu: :usegalaxy-eu:`htseq_count`, doi: :doi:`10.1093/bioinformatics/btu638` .. conda:package:: htseq |downloads_htseq| |docker_htseq| :versions: .. raw:: html
2.0.5-02.0.4-02.0.3-12.0.3-02.0.2-12.0.2-02.0.1-01.99.2-21.99.2-1 ``2.0.5-0``,  ``2.0.4-0``,  ``2.0.3-1``,  ``2.0.3-0``,  ``2.0.2-1``,  ``2.0.2-0``,  ``2.0.1-0``,  ``1.99.2-2``,  ``1.99.2-1``,  ``1.99.2-0``,  ``0.13.5-1``,  ``0.13.5-0``,  ``0.12.4-2``,  ``0.12.4-1``,  ``0.12.4-0``,  ``0.12.3-0``,  ``0.11.3-0``,  ``0.11.2-1``,  ``0.11.2-0``,  ``0.11.1-0``,  ``0.11.0-1``,  ``0.11.0-0``,  ``0.9.1-4``,  ``0.9.1-3``,  ``0.9.1-2``,  ``0.9.1-1``,  ``0.9.1-0``,  ``0.7.2-4``,  ``0.7.2-3``,  ``0.7.2-2``,  ``0.7.2-1``,  ``0.7.2-0``,  ``0.6.1.post1-6``,  ``0.6.1.post1-5``,  ``0.6.1.post1-4``,  ``0.6.1-5``,  ``0.6.1-4``,  ``0.6.1-3``,  ``0.6.1-2``,  ``0.6.1-1``,  ``0.6.1-0``,  ``0.6.1p1-1``,  ``0.6.1p1-0`` .. raw:: html
:depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :depends matplotlib-base: ``>=1.4`` :depends numpy: ``>=1.21.6,<2.0a0`` :depends pandas: ``>=1.1.0`` :depends pysam: ``>=0.15.1`` :depends pysam: ``>=0.22.0,<0.23.0a0`` :depends python: ``>=3.10,<3.11.0a0`` :depends python_abi: ``3.10.* *_cp310`` :depends scipy: ``>=1.5.0`` :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 htseq and update with:: mamba update htseq To create a new environment, run:: mamba create --name myenvname htseq 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/htseq: (see `htseq/tags`_ for valid values for ````) .. |downloads_htseq| image:: https://img.shields.io/conda/dn/bioconda/htseq.svg?style=flat :target: https://anaconda.org/bioconda/htseq :alt: (downloads) .. |docker_htseq| image:: https://quay.io/repository/biocontainers/htseq/status :target: https://quay.io/repository/biocontainers/htseq .. _`htseq/tags`: https://quay.io/repository/biocontainers/htseq?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/htseq/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/htseq/README.html