recipe bioconductor-undo

Unsupervised Deconvolution of Tumor-Stromal Mixed Expressions

Homepage:

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

License:

GPL-2

Recipe:

/bioconductor-undo/meta.yaml

Links:

biotools: undo, doi: 10.1093/bioinformatics/btu607

UNDO is an R package for unsupervised deconvolution of tumor and stromal mixed expression data. It detects marker genes and deconvolutes the mixing expression data without any prior knowledge.

package bioconductor-undo

(downloads) docker_bioconductor-undo

versions:
1.44.0-0,  1.42.0-0,  1.40.0-0,  1.36.0-0,  1.34.0-0,  1.32.0-1,  1.32.0-0,  1.30.0-0,  1.28.0-0, 

1.44.0-0,  1.42.0-0,  1.40.0-0,  1.36.0-0,  1.34.0-0,  1.32.0-1,  1.32.0-0,  1.30.0-0,  1.28.0-0,  1.26.0-1,  1.24.0-0,  1.22.0-0,  1.20.0-0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-biocgenerics:

>=0.48.0,<0.49.0

depends r-base:

>=4.3,<4.4.0a0

depends r-boot:

depends r-mass:

depends r-nnls:

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-undo

and update with::

   mamba update bioconductor-undo

To create a new environment, run:

mamba create --name myenvname bioconductor-undo

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-undo:<tag>

(see `bioconductor-undo/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-undo/README.html)