recipe bioconductor-crisprbowtie

Bowtie-based alignment of CRISPR gRNA spacer sequences

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-crisprbowtie/meta.yaml

Provides a user-friendly interface to map on-targets and off-targets of CRISPR gRNA spacer sequences using bowtie. The alignment is fast, and can be performed using either commonly-used or custom CRISPR nucleases. The alignment can work with any reference or custom genomes. Both DNA- and RNA-targeting nucleases are supported.

package bioconductor-crisprbowtie

Versions:

1.2.0-0

Depends:

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-bsgenome >=1.66.0,<1.67.0

• bioconductor-crisprbase >=1.2.0,<1.3.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rbowtie >=1.38.0,<1.39.0

• r-base >=4.2,<4.3.0a0

• r-readr

• r-stringr

Required By:

• bioconductor-crisprverse

• bioconductor-crisprdesign

Installation

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

conda install bioconductor-crisprbowtie

and update with:

conda update bioconductor-crisprbowtie

or use the docker container:

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

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

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