recipe bioconductor-rcellminer

rcellminer: Molecular Profiles, Drug Response, and Chemical Structures for the NCI-60 Cell Lines

Homepage:

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

License:

LGPL-3 + file LICENSE

Recipe:

/bioconductor-rcellminer/meta.yaml

The NCI-60 cancer cell line panel has been used over the course of several decades as an anti-cancer drug screen. This panel was developed as part of the Developmental Therapeutics Program (DTP, http://dtp.nci.nih.gov/) of the U.S. National Cancer Institute (NCI). Thousands of compounds have been tested on the NCI-60, which have been extensively characterized by many platforms for gene and protein expression, copy number, mutation, and others (Reinhold, et al., 2012). The purpose of the CellMiner project (http://discover.nci.nih.gov/ cellminer) has been to integrate data from multiple platforms used to analyze the NCI-60 and to provide a powerful suite of tools for exploration of NCI-60 data.

package bioconductor-rcellminer

versions:

2.28.0-0,  2.24.0-0,  2.22.0-0,  2.20.0-0,  2.16.0-0,  2.14.0-0,  2.12.1-0,  2.11.1-0,  2.10.0-0, 

2.28.0-0,  2.24.0-0,  2.22.0-0,  2.20.0-0,  2.16.0-0,  2.14.0-0,  2.12.1-0,  2.11.1-0,  2.10.0-0,  2.8.0-1,  2.6.0-1,  2.4.0-0

depends bioconductor-biobase:

>=2.66.0,<2.67.0

depends bioconductor-rcellminerdata:

>=2.28.0,<2.29.0

depends r-base:

>=4.4,<4.5.0a0

depends r-ggplot2:

depends r-gplots:

depends r-shiny:

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-rcellminer

and update with::

   mamba update bioconductor-rcellminer

To create a new environment, run:

mamba create --name myenvname bioconductor-rcellminer

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-rcellminer:<tag>

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

Download stats

Link to this page

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