- recipe bioconductor-crisprseek
Design of target-specific guide RNAs in CRISPR-Cas9, genome-editing systems
- Homepage:
https://bioconductor.org/packages/3.14/bioc/html/CRISPRseek.html
- License:
GPL (>= 2)
- Recipe:
- Links:
biotools: crisprseek
The package includes functions to find potential guide RNAs for the CRISPR editing system including Base Editors and the Prime Editor for input target sequences, optionally filter guide RNAs without restriction enzyme cut site, or without paired guide RNAs, genome-wide search for off-targets, score, rank, fetch flank sequence and indicate whether the target and off-targets are located in exon region or not. Potential guide RNAs are annotated with total score of the top5 and topN off-targets, detailed topN mismatch sites, restriction enzyme cut sites, and paired guide RNAs. The package also output indels and their frequencies for Cas9 targeted sites.
- package bioconductor-crisprseek¶
-
- Versions:
1.34.0-0
,1.32.0-0
,1.30.1-0
,1.30.0-0
,1.28.0-0
,1.26.0-0
,1.24.0-1
,1.22.0-0
,1.20.0-0
,1.34.0-0
,1.32.0-0
,1.30.1-0
,1.30.0-0
,1.28.0-0
,1.26.0-0
,1.24.0-1
,1.22.0-0
,1.20.0-0
,1.18.0-0
- Depends:
bioconductor-biocgenerics
>=0.40.0,<0.41.0
bioconductor-biostrings
>=2.62.0,<2.63.0
bioconductor-bsgenome
>=1.62.0,<1.63.0
bioconductor-delayedarray
>=0.20.0,<0.21.0
bioconductor-genomeinfodb
>=1.30.0,<1.31.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-rhdf5
>=2.38.0,<2.39.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
bioconductor-xvector
>=0.34.0,<0.35.0
r-base
>=4.1,<4.2.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-crisprseek
and update with:
conda update bioconductor-crisprseek
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-crisprseek:<tag>
(see bioconductor-crisprseek/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-crisprseek/README.html)