- recipe bioconductor-crisprbase
Base functions and classes for CRISPR gRNA design
MIT + file LICENSE
Provides S4 classes for general nucleases, CRISPR nucleases, CRISPR nickases, and base editors.Several CRISPR-specific genome arithmetic functions are implemented to help extract genomic coordinates of spacer and protospacer sequences. Commonly-used CRISPR nuclease objects are provided that can be readily used in other packages. Both DNA- and RNA-targeting nucleases are supported.
- package bioconductor-crisprbase¶
- depends bioconductor-biocgenerics:
- depends bioconductor-biostrings:
- depends bioconductor-genomicranges:
- depends bioconductor-iranges:
- depends bioconductor-s4vectors:
- depends r-base:
- depends r-stringr:
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-crisprbase and update with:: mamba update bioconductor-crisprbase
To create a new environment, run:
mamba create --name myenvname bioconductor-crisprbase
myenvnamebeing 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-crisprbase:<tag> (see `bioconductor-crisprbase/tags`_ for valid values for ``<tag>``)