:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-cntools' .. highlight: bash bioconductor-cntools ==================== .. conda:recipe:: bioconductor-cntools :replaces_section_title: :noindex: Convert segment data into a region by sample matrix to allow for other high level computational analyses. :homepage: https://bioconductor.org/packages/3.18/bioc/html/CNTools.html :license: LGPL :recipe: /`bioconductor-cntools `_/`meta.yaml `_ :links: biotools: :biotools:`cntools`, doi: :doi:`10.1038/nmeth.3252` This package provides tools to convert the output of segmentation analysis using DNAcopy to a matrix structure with overlapping segments as rows and samples as columns so that other computational analyses can be applied to segmented data .. conda:package:: bioconductor-cntools |downloads_bioconductor-cntools| |docker_bioconductor-cntools| :versions: .. raw:: html
1.58.0-01.56.0-01.54.0-11.54.0-01.50.0-21.50.0-11.50.0-01.48.0-01.46.0-1 ``1.58.0-0``,  ``1.56.0-0``,  ``1.54.0-1``,  ``1.54.0-0``,  ``1.50.0-2``,  ``1.50.0-1``,  ``1.50.0-0``,  ``1.48.0-0``,  ``1.46.0-1``,  ``1.46.0-0``,  ``1.44.0-0``,  ``1.42.0-0``,  ``1.40.0-1``,  ``1.38.0-0``,  ``1.36.0-0``,  ``1.34.0-0``,  ``1.32.0-0`` .. raw:: html
:depends bioconductor-genefilter: ``>=1.84.0,<1.85.0`` :depends bioconductor-genefilter: ``>=1.84.0,<1.85.0a0`` :depends libblas: ``>=3.9.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends liblapack: ``>=3.9.0,<4.0a0`` :depends r-base: ``>=4.3,<4.4.0a0`` :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-cntools and update with:: mamba update bioconductor-cntools To create a new environment, run:: mamba create --name myenvname bioconductor-cntools 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-cntools: (see `bioconductor-cntools/tags`_ for valid values for ````) .. |downloads_bioconductor-cntools| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-cntools.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-cntools :alt: (downloads) .. |docker_bioconductor-cntools| image:: https://quay.io/repository/biocontainers/bioconductor-cntools/status :target: https://quay.io/repository/biocontainers/bioconductor-cntools .. _`bioconductor-cntools/tags`: https://quay.io/repository/biocontainers/bioconductor-cntools?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-cntools/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-cntools/README.html