recipe bioconductor-gcrisprtools

Suite of Functions for Pooled Crispr Screen QC and Analysis

Homepage

https://bioconductor.org/packages/3.11/bioc/html/gCrisprTools.html

License

Artistic-2.0

Recipe

/bioconductor-gcrisprtools/meta.yaml

Links

biotools: gcrisprtools, doi: 10.1038/nmeth.3252

Set of tools for evaluating pooled high-throughput screening experiments, typically employing CRISPR/Cas9 or shRNA expression cassettes. Contains methods for interrogating library and cassette behavior within an experiment, identifying differentially abundant cassettes, aggregating signals to identify candidate targets for empirical validation, hypothesis testing, and comprehensive reporting.

package bioconductor-gcrisprtools

Versions

1.16.0-0,  1.14.0-0,  1.12.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-0

Depends

• bioconductor-biobase >=2.48.0,<2.49.0

• bioconductor-limma >=3.44.0,<3.45.0

• bioconductor-panther.db >=1.0.0,<1.1.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• r-base >=4.0,<4.1.0a0

• r-ggplot2

• r-rmarkdown

• r-robustrankaggreg

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-gcrisprtools

and update with:

conda update bioconductor-gcrisprtools

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-gcrisprtools:<tag>

(see bioconductor-gcrisprtools/tags for valid values for <tag>)

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-gcrisprtools/README.html)