BBCAnalyzer

DOI: 10.18129/B9.bioc.BBCAnalyzer  

BBCAnalyzer: an R/Bioconductor package for visualizing base counts

Bioconductor version: Release (3.16)

BBCAnalyzer is a package for visualizing the relative or absolute number of bases, deletions and insertions at defined positions in sequence alignment data available as bam files in comparison to the reference bases. Markers for the relative base frequencies, the mean quality of the detected bases, known mutations or polymorphisms and variants called in the data may additionally be included in the plots.

Author: Sarah Sandmann

Maintainer: Sarah Sandmann <sarah.sandmann at uni-muenster.de>

Installation

To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("BBCAnalyzer")

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("BBCAnalyzer")

 

PDF	R Script	Using BBCAnalyzer
PDF		Reference Manual
Text		NEWS

Details

biocViews	Alignment, Coverage, GeneticVariability, SNP, Sequencing, Software
Version	1.28.0
In Bioconductor since	BioC 3.2 (R-3.2) (7.5 years)
License	LGPL-3
Depends
Imports	SummarizedExperiment, VariantAnnotation, Rsamtools, grDevices, GenomicRanges, IRanges, Biostrings
LinkingTo
Suggests	BSgenome.Hsapiens.UCSC.hg19
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	BBCAnalyzer_1.28.0.tar.gz
Windows Binary	BBCAnalyzer_1.28.0.zip
macOS Binary (x86_64)	BBCAnalyzer_1.28.0.tgz
macOS Binary (arm64)	BBCAnalyzer_1.28.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BBCAnalyzer
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/BBCAnalyzer
Bioc Package Browser	https://code.bioconductor.org/browse/BBCAnalyzer/
Package Short Url	https://bioconductor.org/packages/BBCAnalyzer/
Package Downloads Report	Download Stats