BBCAnalyzer

This is the released version of BBCAnalyzer; for the devel version, see BBCAnalyzer.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2

BBCAnalyzer: an R/Bioconductor package for visualizing base counts

Bioconductor version: Release (3.23)

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>

Citation (from within R, enter citation("BBCAnalyzer")):

Sarah Sandmann. BBCAnalyzer: BBCAnalyzer: an R/Bioconductor package for visualizing base counts. doi:10.18129/B9.bioc.BBCAnalyzer, R package version 1.42.0, https://bioconductor.org/packages/BBCAnalyzer.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") 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")

Using BBCAnalyzer	PDF	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Alignment, Coverage, GeneticVariability, SNP, Sequencing, Software
Version	1.42.0
In Bioconductor since	BioC 3.2 (R-3.2) (11 years)
License	LGPL-3
Depends
Imports	SummarizedExperiment, VariantAnnotation, Rsamtools, grDevices, GenomicRanges, IRanges, Biostrings
System Requirements
URL

Suggests	BSgenome.Hsapiens.UCSC.hg19
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	BBCAnalyzer_1.42.0.tar.gz
Windows Binary (x86_64)	BBCAnalyzer_1.42.0.zip
macOS Binary (big-sur-x86_64)	BBCAnalyzer_1.42.0.tgz
macOS Binary (sonoma-arm64)	BBCAnalyzer_1.42.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BBCAnalyzer
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/BBCAnalyzer
Package Short Url	https://bioconductor.org/packages/BBCAnalyzer/
Package Downloads Report	Download Stats