recipe bioconductor-cytomethic

DNA methylation-based classification and regression

Homepage:

https://bioconductor.org/packages/3.20/data/experiment/html/CytoMethIC.html

License:

Artistic-2.0

Recipe:

/bioconductor-cytomethic/meta.yaml

This package provides DNA methylation-based prediction of cancer type, molecular signature and clinical outcomes. It provides convenience functions for missing value imputation, probe ID conversion, model interpretation and visualization. The package links to our models on ExperimentHub. The package currently supports HM450, EPIC and EPICv2.

package bioconductor-cytomethic

versions:

1.2.0-0

depends bioconductor-biocparallel:

>=1.40.0,<1.41.0

depends bioconductor-data-packages:

>=20241103

depends bioconductor-experimenthub:

>=2.14.0,<2.15.0

depends bioconductor-sesame:

>=1.24.0,<1.25.0

depends bioconductor-sesamedata:

>=1.24.0,<1.25.0

depends curl:

depends r-base:

>=4.4,<4.5.0a0

depends r-biocmanager:

depends r-tibble:

requirements:

additional platforms:

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-cytomethic

and update with::

   mamba update bioconductor-cytomethic

To create a new environment, run:

mamba create --name myenvname bioconductor-cytomethic

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-cytomethic:<tag>

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

Download stats

Link to this page

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-cytomethic/README.html)