BBCAnalyzer
BBCAnalyzer: an R/Bioconductor package for visualizing base counts
Bioconductor version: Release (3.19)
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("BBCAnalyzer")):
Installation
To install this package, start R (version "4.4") 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 | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Alignment, Coverage, GeneticVariability, SNP, Sequencing, Software |
| Version | 1.34.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (9 years) |
| License | LGPL-3 |
| Depends | |
| Imports | SummarizedExperiment, VariantAnnotation, Rsamtools, grDevices, GenomicRanges, IRanges, Biostrings |
| System Requirements | |
| URL |
See More
| Suggests | BSgenome.Hsapiens.UCSC.hg19 |
| 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 | BBCAnalyzer_1.34.0.tar.gz |
| Windows Binary (x86_64) | BBCAnalyzer_1.34.0.zip |
| macOS Binary (x86_64) | BBCAnalyzer_1.34.0.tgz |
| macOS Binary (arm64) | BBCAnalyzer_1.34.0.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 |