:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-methylcc' .. highlight: bash bioconductor-methylcc ===================== .. conda:recipe:: bioconductor-methylcc :replaces_section_title: :noindex: Estimate the cell composition of whole blood in DNA methylation samples :homepage: https://bioconductor.org/packages/3.18/bioc/html/methylCC.html :license: GPL-3 :recipe: /`bioconductor-methylcc `_/`meta.yaml `_ A tool to estimate the cell composition of DNA methylation whole blood sample measured on any platform technology \(microarray and sequencing\). .. conda:package:: bioconductor-methylcc |downloads_bioconductor-methylcc| |docker_bioconductor-methylcc| :versions: ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.0-0``,  ``1.6.0-0``,  ``1.4.0-1``,  ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-1`` :depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-bsseq: ``>=1.38.0,<1.39.0`` :depends bioconductor-bumphunter: ``>=1.44.0,<1.45.0`` :depends bioconductor-flowsorted.blood.450k: ``>=1.40.0,<1.41.0`` :depends bioconductor-genefilter: ``>=1.84.0,<1.85.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-illuminahumanmethylation450kanno.ilmn12.hg19: ``>=0.6.0,<0.7.0`` :depends bioconductor-illuminahumanmethylation450kmanifest: ``>=0.4.0,<0.5.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-minfi: ``>=1.48.0,<1.49.0`` :depends bioconductor-plyranges: ``>=1.22.0,<1.23.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-dplyr: :depends r-magrittr: :depends r-quadprog: :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-methylcc and update with:: mamba update bioconductor-methylcc To create a new environment, run:: mamba create --name myenvname bioconductor-methylcc 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-methylcc: (see `bioconductor-methylcc/tags`_ for valid values for ````) .. |downloads_bioconductor-methylcc| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-methylcc.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-methylcc :alt: (downloads) .. |docker_bioconductor-methylcc| image:: https://quay.io/repository/biocontainers/bioconductor-methylcc/status :target: https://quay.io/repository/biocontainers/bioconductor-methylcc .. _`bioconductor-methylcc/tags`: https://quay.io/repository/biocontainers/bioconductor-methylcc?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-methylcc/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-methylcc/README.html