- recipe bioconductor-gcrisprtools
Suite of Functions for Pooled Crispr Screen QC and Analysis
- Homepage
https://bioconductor.org/packages/3.14/bioc/html/gCrisprTools.html
- License
Artistic-2.0
- Recipe
- 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. Version 2.0 extends these applications to include a variety of tools for contextualizing and integrating signals across many experiments, incorporates extended signal enrichment methodologies via the "sparrow" package, and streamlines many formal requirements to aid in interpretablity.
- package bioconductor-gcrisprtools¶
-
- Versions
2.0.0-0
,1.20.0-0
,1.18.0-1
,1.18.0-0
,1.16.0-0
,1.14.0-0
,1.12.0-1
,1.10.0-0
,1.8.0-0
,2.0.0-0
,1.20.0-0
,1.18.0-1
,1.18.0-0
,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
>=2.54.0,<2.55.0
bioconductor-complexheatmap
>=2.10.0,<2.11.0
bioconductor-limma
>=3.50.0,<3.51.0
bioconductor-summarizedexperiment
>=1.24.0,<1.25.0
r-base
>=4.1,<4.2.0a0
- 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>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-gcrisprtools/README.html)