recipe bioconductor-deeptarget

Deep characterization of cancer drugs

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/DeepTarget.html

License:

GPL-2

Recipe:

/bioconductor-deeptarget/meta.yaml

This package predicts a drug’s primary target(s) or secondary target(s) by integrating large-scale genetic and drug screens from the Cancer Dependency Map project run by the Broad Institute. It further investigates whether the drug specifically targets the wild-type or mutated target forms. To show how to use this package in practice, we provided sample data along with step-by-step example.

package bioconductor-deeptarget

versions:

1.0.0-0

depends bioconductor-biocparallel:

>=1.40.0,<1.41.0

depends bioconductor-depmap:

>=1.20.0,<1.21.0

depends bioconductor-fgsea:

>=1.32.0,<1.33.0

depends r-base:

>=4.4,<4.5.0a0

depends r-dplyr:

depends r-ggplot2:

depends r-ggpubr:

depends r-proc:

depends r-readr:

depends r-stringr:

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-deeptarget

and update with::

   mamba update bioconductor-deeptarget

To create a new environment, run:

mamba create --name myenvname bioconductor-deeptarget

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-deeptarget:<tag>

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