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multicrispr
This is thereleased version of multicrispr; for the devel version, seemulticrispr.
Multi-locus multi-purpose Crispr/Cas design
Bioconductor version: Release (3.22)
This package is for designing Crispr/Cas9 and Prime Editing experiments. It contains functions to (1) define and transform genomic targets, (2) find spacers (4) count offtarget (mis)matches, and (5) compute Doench2016/2014 targeting efficiency. Care has been taken for multicrispr to scale well towards large target sets, enabling the design of large Crispr/Cas9 libraries.
Author: Aditya Bhagwat [aut, cre], Richie ´Cotton [aut], Rene Wiegandt [ctb], Mette Bentsen [ctb], Jens Preussner [ctb], Michael Lawrence [ctb], Hervé Pagès [ctb], Johannes Graumann [sad], Mario Looso [sad, rth]
Maintainer: Aditya Bhagwat <aditya.bhagwat at uni-marburg.de>
citation("multicrispr")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("multicrispr")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("multicrispr")| genome_arithmetics | HTML | R Script |
| grna_design | HTML | R Script |
| prime_editing | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CRISPR,Software |
| Version | 1.20.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (5 years) |
| License | GPL-2 |
| Depends | R (>= 4.0) |
| Imports | BiocGenerics,Biostrings,BSgenome,CRISPRseek,data.table,Seqinfo,GenomicFeatures,GenomicRanges,ggplot2, grid,karyoploteR,magrittr, methods, parallel,plyranges,Rbowtie,reticulate,rtracklayer, stats,stringi,tidyr,tidyselect, utils |
| System Requirements | |
| URL | https://github.com/bhagwataditya/multicrispr |
| Bug Reports | https://github.com/bhagwataditya/multicrispr/issues |
See More
| Suggests | AnnotationHub,BiocStyle,BSgenome.Hsapiens.UCSC.hg38,BSgenome.Mmusculus.UCSC.mm10,BSgenome.Scerevisiae.UCSC.sacCer1,ensembldb,IRanges,GenomeInfoDb,knitr,magick,rmarkdown,testthat,TxDb.Mmusculus.UCSC.mm10.knownGene |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | multicrispr_1.20.0.tar.gz |
| Windows Binary (x86_64) | multicrispr_1.20.0.zip (64-bit only) |
| macOS Binary (x86_64) | multicrispr_1.20.0.tgz |
| macOS Binary (arm64) | multicrispr_1.20.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/multicrispr |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/multicrispr |
| Bioc Package Browser | https://code.bioconductor.org/browse/multicrispr/ |
| Package Short Url | https://bioconductor.org/packages/multicrispr/ |
| Package Downloads Report | Download Stats |