:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-htseqgenie' .. highlight: bash bioconductor-htseqgenie ======================= .. conda:recipe:: bioconductor-htseqgenie :replaces_section_title: :noindex: A NGS analysis pipeline. :homepage: https://bioconductor.org/packages/3.18/bioc/html/HTSeqGenie.html :license: Artistic-2.0 :recipe: /`bioconductor-htseqgenie `_/`meta.yaml `_ Libraries to perform NGS analysis. .. conda:package:: bioconductor-htseqgenie |downloads_bioconductor-htseqgenie| |docker_bioconductor-htseqgenie| :versions: .. raw:: html
4.32.0-04.30.0-04.27.0-04.24.0-04.22.0-04.20.0-14.20.0-04.18.0-04.16.0-0 ``4.32.0-0``,  ``4.30.0-0``,  ``4.27.0-0``,  ``4.24.0-0``,  ``4.22.0-0``,  ``4.20.0-1``,  ``4.20.0-0``,  ``4.18.0-0``,  ``4.16.0-0``,  ``4.14.0-1``,  ``4.12.0-0`` .. raw:: html
:depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocparallel: ``>=1.36.0,<1.37.0`` :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0`` :depends bioconductor-chipseq: ``>=1.52.0,<1.53.0`` :depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicalignments: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicfeatures: ``>=1.54.0,<1.55.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-gmapr: ``>=1.44.0,<1.45.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-rsamtools: ``>=2.18.0,<2.19.0`` :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-shortread: ``>=1.60.0,<1.61.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends bioconductor-variantannotation: ``>=1.48.0,<1.49.0`` :depends bioconductor-varianttools: ``>=1.44.0,<1.45.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-cairo: ``>=1.5.5`` :depends r-hwriter: ``>=1.3.0`` :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 bioconductor-htseqgenie and update with:: mamba update bioconductor-htseqgenie To create a new environment, run:: mamba create --name myenvname bioconductor-htseqgenie 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/bioconductor-htseqgenie: (see `bioconductor-htseqgenie/tags`_ for valid values for ````) .. |downloads_bioconductor-htseqgenie| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-htseqgenie.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-htseqgenie :alt: (downloads) .. |docker_bioconductor-htseqgenie| image:: https://quay.io/repository/biocontainers/bioconductor-htseqgenie/status :target: https://quay.io/repository/biocontainers/bioconductor-htseqgenie .. _`bioconductor-htseqgenie/tags`: https://quay.io/repository/biocontainers/bioconductor-htseqgenie?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/bioconductor-htseqgenie/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/bioconductor-htseqgenie/README.html