:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-funchip' .. highlight: bash bioconductor-funchip ==================== .. conda:recipe:: bioconductor-funchip :replaces_section_title: :noindex: Clustering and Alignment of ChIP\-Seq peaks based on their shapes :homepage: https://bioconductor.org/packages/3.18/bioc/html/FunChIP.html :license: Artistic-2.0 :recipe: /`bioconductor-funchip `_/`meta.yaml `_ :links: biotools: :biotools:`funchip`, doi: :doi:`10.1093/bioinformatics/btx201` Preprocessing and smoothing of ChIP\-Seq peaks and efficient implementation of the k\-mean alignment algorithm to classify them. .. conda:package:: bioconductor-funchip |downloads_bioconductor-funchip| |docker_bioconductor-funchip| :versions: .. raw:: html
1.28.0-01.26.0-01.24.0-11.24.0-01.20.0-21.20.0-11.20.0-01.18.0-01.16.0-1 ``1.28.0-0``,  ``1.26.0-0``,  ``1.24.0-1``,  ``1.24.0-0``,  ``1.20.0-2``,  ``1.20.0-1``,  ``1.20.0-0``,  ``1.18.0-0``,  ``1.16.0-1``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.0-0``,  ``1.10.0-1``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-0`` .. raw:: html
:depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomeinfodb: ``>=1.38.1,<1.39.0a0`` :depends bioconductor-genomicalignments: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicalignments: ``>=1.38.0,<1.39.0a0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-genomicranges: ``>=1.54.1,<1.55.0a0`` :depends bioconductor-rsamtools: ``>=2.18.0,<2.19.0`` :depends bioconductor-rsamtools: ``>=2.18.0,<2.19.0a0`` :depends libblas: ``>=3.9.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends liblapack: ``>=3.9.0,<4.0a0`` :depends libstdcxx-ng: ``>=12`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-doparallel: :depends r-fda: :depends r-foreach: :depends r-rcolorbrewer: :depends r-rcpp: :depends r-shiny: :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-funchip and update with:: mamba update bioconductor-funchip To create a new environment, run:: mamba create --name myenvname bioconductor-funchip 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-funchip: (see `bioconductor-funchip/tags`_ for valid values for ````) .. |downloads_bioconductor-funchip| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-funchip.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-funchip :alt: (downloads) .. |docker_bioconductor-funchip| image:: https://quay.io/repository/biocontainers/bioconductor-funchip/status :target: https://quay.io/repository/biocontainers/bioconductor-funchip .. _`bioconductor-funchip/tags`: https://quay.io/repository/biocontainers/bioconductor-funchip?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-funchip/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-funchip/README.html