recipe bioconductor-maftools

Summarize, Analyze and Visualize MAF Files

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/maftools.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-maftools/meta.yaml

Links:

biotools: maftools, usegalaxy-eu: maftools

Analyze and visualize Mutation Annotation Format (MAF) files from large scale sequencing studies. This package provides various functions to perform most commonly used analyses in cancer genomics and to create feature rich customizable visualzations with minimal effort.

package bioconductor-maftools

versions:

2.22.0-0,  2.18.0-1,  2.18.0-0,  2.16.0-0,  2.14.0-1,  2.14.0-0,  2.10.05-0,  2.10.0-1,  2.10.0-0, 

2.22.0-0,  2.18.0-1,  2.18.0-0,  2.16.0-0,  2.14.0-1,  2.14.0-0,  2.10.05-0,  2.10.0-1,  2.10.0-0,  2.8.0-0,  2.6.05-0,  2.6.0-0,  2.4.0-0,  2.2.0-0,  2.0.10-0,  2.0.0-0,  1.8.0-0,  1.6.15-0,  1.4.27-0

depends bioconductor-dnacopy:

>=1.80.0,<1.81.0

depends bioconductor-dnacopy:

>=1.80.0,<1.81.0a0

depends bioconductor-rhtslib:

>=3.2.0,<3.3.0

depends bioconductor-rhtslib:

>=3.2.0,<3.3.0a0

depends bioconductor-zlibbioc:

>=1.52.0,<1.53.0

depends bioconductor-zlibbioc:

>=1.52.0,<1.53.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc:

>=13

depends liblapack:

>=3.9.0,<4.0a0

depends liblzma:

>=5.6.3,<6.0a0

depends libzlib:

>=1.3.1,<2.0a0

depends r-base:

>=4.4,<4.5.0a0

depends r-data.table:

depends r-pheatmap:

depends r-rcolorbrewer:

depends r-survival:

requirements:

additional platforms:

linux-aarch64

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see 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-maftools

and update with::

   mamba update bioconductor-maftools

To create a new environment, run:

mamba create --name myenvname bioconductor-maftools

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-maftools:<tag>

(see `bioconductor-maftools/tags`_ for valid values for ``<tag>``)

Download stats

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Render an 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-maftools/README.html)