:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-chipenrich' .. highlight: bash bioconductor-chipenrich ======================= .. conda:recipe:: bioconductor-chipenrich :replaces_section_title: :noindex: Gene Set Enrichment For ChIP\-seq Peak Data :homepage: https://bioconductor.org/packages/3.18/bioc/html/chipenrich.html :license: GPL-3 :recipe: /`bioconductor-chipenrich `_/`meta.yaml `_ ChIP\-Enrich and Poly\-Enrich perform gene set enrichment testing using peaks called from a ChIP\-seq experiment. The method empirically corrects for confounding factors such as the length of genes\, and the mappability of the sequence surrounding genes. .. conda:package:: bioconductor-chipenrich |downloads_bioconductor-chipenrich| |docker_bioconductor-chipenrich| :versions: .. raw:: html
2.26.0-02.24.0-02.22.0-02.18.0-02.16.0-02.14.0-12.14.0-02.12.0-02.10.0-1 ``2.26.0-0``,  ``2.24.0-0``,  ``2.22.0-0``,  ``2.18.0-0``,  ``2.16.0-0``,  ``2.14.0-1``,  ``2.14.0-0``,  ``2.12.0-0``,  ``2.10.0-1``,  ``2.8.0-1``,  ``2.6.0-0`` .. raw:: html
:depends bioconductor-annotationdbi: ``>=1.64.0,<1.65.0`` :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-chipenrich.data: ``>=2.26.0,<2.27.0`` :depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-org.dm.eg.db: ``>=3.18.0,<3.19.0`` :depends bioconductor-org.dr.eg.db: ``>=3.18.0,<3.19.0`` :depends bioconductor-org.hs.eg.db: ``>=3.18.0,<3.19.0`` :depends bioconductor-org.mm.eg.db: ``>=3.18.0,<3.19.0`` :depends bioconductor-org.rn.eg.db: ``>=3.18.0,<3.19.0`` :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-lattice: :depends r-latticeextra: :depends r-mass: :depends r-mgcv: :depends r-plyr: :depends r-rms: :depends r-stringr: :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-chipenrich and update with:: mamba update bioconductor-chipenrich To create a new environment, run:: mamba create --name myenvname bioconductor-chipenrich 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-chipenrich: (see `bioconductor-chipenrich/tags`_ for valid values for ````) .. |downloads_bioconductor-chipenrich| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-chipenrich.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-chipenrich :alt: (downloads) .. |docker_bioconductor-chipenrich| image:: https://quay.io/repository/biocontainers/bioconductor-chipenrich/status :target: https://quay.io/repository/biocontainers/bioconductor-chipenrich .. _`bioconductor-chipenrich/tags`: https://quay.io/repository/biocontainers/bioconductor-chipenrich?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-chipenrich/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-chipenrich/README.html