Package: crispRdesignR 1.1.7

crispRdesignR: Guide Sequence Design for CRISPR/Cas9

Designs guide sequences for CRISPR/Cas9 genome editing and provides information on sequence features pertinent to guide efficiency. Sequence features include annotated off-target predictions in a user-selected genome and a predicted efficiency score based on the model described in Doench et al. (2016) <doi:10.1038/nbt.3437>. Users are able to import additional genomes and genome annotation files to use when searching and annotating off-target hits. All guide sequences and off-target data can be generated through the 'R' console with sgRNA_Design() or through 'crispRdesignR's' user interface with crispRdesignRUI(). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and the associated protein Cas9 refer to a technique used in genome editing.

Authors:Dylan Beeber [aut, cre], Frederic Chain [aut]

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crispRdesignR.pdf |crispRdesignR.html✨
crispRdesignR/json (API)

# Install 'crispRdesignR' in R:
install.packages('crispRdesignR', repos = c('https://dylanbeeber.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/dylanbeeber/crisprdesignr/issues

On CRAN:

3.85 score 14 stars 5 scripts 648 downloads 1 mentions 6 exports 93 dependencies

Last updated 2 years agofrom:00487e4987. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 06 2024
R-4.5-winNOTENov 06 2024
R-4.5-linuxNOTENov 06 2024
R-4.4-winNOTENov 06 2024
R-4.4-macNOTENov 06 2024
R-4.3-winNOTENov 06 2024
R-4.3-macNOTEOct 05 2024

Exports:crispRdesignRUIDoench_2016_processinggetofftargetdatagetsgRNAdatasgRNA_designsgRNA_design_function

Dependencies:abindaskpassbase64encBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitopsbslibcachemclicodetoolscommonmarkcpp11crayoncrosstalkcurlDelayedArraydigestDTevaluatefastmapfontawesomeformatRfsfutile.loggerfutile.optionsgbmgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicRangesgluehighrhtmltoolshtmlwidgetshttpuvhttrIRangesjquerylibjsonliteknitrlambda.rlaterlatticelazyevallifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpromisesR6rappdirsRcppRCurlrestfulrRhtslibrjsonrlangrmarkdownRsamtoolsrtracklayerS4ArraysS4VectorssassshinysnowsourcetoolsSparseArraystringistringrSummarizedExperimentsurvivalsystinytexUCSC.utilsvctrsvtreatwithrwraprxfunXMLxtableXVectoryamlzlibbioc