recipe bioconductor-epidish

Epigenetic Dissection of Intra-Sample-Heterogeneity

Homepage:

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

License:

GPL-2

Recipe:

/bioconductor-epidish/meta.yaml

EpiDISH is a R package to infer the proportions of a priori known cell-types present in a sample representing a mixture of such cell-types. Right now, the package can be used on DNAm data of whole blood, generic epithelial tissue and breast tissue. Besides, the package provides a function that allows the identification of differentially methylated cell-types and their directionality of change in Epigenome-Wide Association Studies.

package bioconductor-epidish

(downloads) docker_bioconductor-epidish

versions:
2.18.0-0,  2.16.0-0,  2.14.0-0,  2.10.0-0,  2.8.0-0,  2.6.0-1,  2.6.0-0,  2.4.0-0,  2.2.0-0, 

2.18.0-0,  2.16.0-0,  2.14.0-0,  2.10.0-0,  2.8.0-0,  2.6.0-1,  2.6.0-0,  2.4.0-0,  2.2.0-0,  2.0.2-1,  2.0.2-0,  1.4.1-0

depends r-base:

>=4.3,<4.4.0a0

depends r-e1071:

depends r-locfdr:

depends r-mass:

depends r-matrix:

depends r-matrixstats:

depends r-quadprog:

depends r-stringr:

requirements:

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-epidish

and update with::

   mamba update bioconductor-epidish

To create a new environment, run:

mamba create --name myenvname bioconductor-epidish

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-epidish:<tag>

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

Download stats

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-epidish/README.html)