multicrispr
This is the development version of multicrispr; for the stable release version, see multicrispr.
Multi-locus multi-purpose Crispr/Cas design
Bioconductor version: Development (3.21)
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")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("multicrispr")
For older versions of R, please refer to the appropriate Bioconductor 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 | 1.17.1 |
| In Bioconductor since | BioC 3.12 (R-4.0) (4 years) |
| License | GPL-2 |
| Depends | R (>= 4.0) |
| Imports | BiocGenerics, Biostrings, BSgenome, CRISPRseek, data.table, GenomeInfoDb, 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, 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
Follow Installation instructions to use this package in your R session.
| Source Package | multicrispr_1.17.1.tar.gz |
| Windows Binary (x86_64) | multicrispr_1.17.1.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/multicrispr |
| Source Repository (Developer Access) | git clone [email protected]:packages/multicrispr |
| Bioc Package Browser | https://code.bioconductor.org/browse/multicrispr/ |
| Package Short Url | https://bioconductor.org/packages/multicrispr/ |
| Package Downloads Report | Download Stats |