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crisprBwa
This is thedevelopment version of crisprBwa; for the stable release version, seecrisprBwa.
BWA-based alignment of CRISPR gRNA spacer sequences
Bioconductor version: Development (3.23)
Provides a user-friendly interface to map on-targets and off-targets of CRISPR gRNA spacer sequences using bwa. 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. Currently not supported on Windows machines.
Author: Jean-Philippe Fortin [aut, cre]
Maintainer: Jean-Philippe Fortin <fortin946 at gmail.com>
citation("crisprBwa")):Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")# The following initializes usage of Bioc develBiocManager::install(version='devel')BiocManager::install("crisprBwa")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("crisprBwa")| Introduction to crisprBwa | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Alignment,CRISPR,FunctionalGenomics,Software |
| Version | 1.15.0 |
| In Bioconductor since | BioC 3.15 (R-4.2) (3.5 years) |
| License | MIT + fileLICENSE |
| Depends | methods |
| Imports | BiocGenerics,BSgenome,crisprBase(>= 0.99.15),Seqinfo,Rbwa,readr, stats,stringr, utils |
| System Requirements | |
| URL | https://github.com/crisprVerse/crisprBwa |
| Bug Reports | https://github.com/crisprVerse/crisprBwa/issues |
See More
| Suggests | BiocStyle,BSgenome.Hsapiens.UCSC.hg38,knitr,rmarkdown,testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | crisprDesign |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | crisprBwa_1.15.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | crisprBwa_1.15.0.tgz |
| macOS Binary (arm64) | crisprBwa_1.15.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/crisprBwa |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/crisprBwa |
| Bioc Package Browser | https://code.bioconductor.org/browse/crisprBwa/ |
| Package Short Url | https://bioconductor.org/packages/crisprBwa/ |
| Package Downloads Report | Download Stats |