recipe bioconductor-crisprscore

On-Target and Off-Target Scoring Algorithms for CRISPR gRNAs

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/crisprScore.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-crisprscore/meta.yaml

Provides R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs). The following nucleases are supported: SpCas9, AsCas12a, enAsCas12a, and RfxCas13d (CasRx). The available on-target cutting efficiency scoring methods are RuleSet1, Azimuth, DeepHF, DeepCpf1, enPAM+GB, and CRISPRscan. Both the CFD and MIT scoring methods are available for off-target specificity prediction. The package also provides a Lindel-derived score to predict the probability of a gRNA to produce indels inducing a frameshift for the Cas9 nuclease. Note that DeepHF, DeepCpf1 and enPAM+GB are not available on Windows machines.

package bioconductor-crisprscore

Versions:

1.2.0-0

Depends:

• bioconductor-basilisk >=1.10.0,<1.11.0

• bioconductor-basilisk.utils >=1.10.0,<1.11.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-crisprscoredata >=1.2.0,<1.3.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-xvector >=0.38.0,<0.39.0

• r-base >=4.2,<4.3.0a0

• r-randomforest

• r-reticulate

• r-stringr

Required By:

• bioconductor-crisprverse

• bioconductor-crisprdesign

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-crisprscore

and update with:

conda update bioconductor-crisprscore

or use the docker container:

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

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

Download stats

Link to this page

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