R453Plus1Toolbox
A package for importing and analyzing data from Roche's Genome Sequencer System
Bioconductor version: 3.23 · Package version: 1.62.0
The R453Plus1 Toolbox comprises useful functions for the analysis of data generated by Roche's 454 sequencing platform. It adds functions for quality assurance as well as for annotation and visualization of detected variants, complementing the software tools shipped by Roche with their product. Further, a pipeline for the detection of structural variants is provided.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("R453Plus1Toolbox")Details
| Maintainer | Hans-Ulrich Klein <h.klein@uni-muenster.de> |
| Author | Hans-Ulrich Klein, Christoph Bartenhagen, Christian Ruckert |
| License | LGPL-3 |
| Downloads rank | 661 |
| Source branch | RELEASE_3_23 |
| biocViews | DataImport, DataRepresentation, Infrastructure, QualityControl, ReportWriting, Sequencing, Software, Visualization |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | R453Plus1Toolbox_1.62.0.tar.gz |
| Windows binary (x86_64) | R453Plus1Toolbox_1.62.0.zip |
| macOS binary (arm64) | R453Plus1Toolbox_1.62.0.tgz |
| macOS binary (x86_64) | R453Plus1Toolbox_1.62.0.tgz |
Dependencies
Depends: R (>= 2.12.0), methods, VariantAnnotation (>= 1.25.11), Biostrings (>= 2.47.6), pwalign, Biobase
Imports: utils, grDevices, graphics, stats, tools, xtable, R2HTML, TeachingDemos, BiocGenerics, S4Vectors (>= 0.17.25), IRanges (>= 2.13.12), XVector, GenomicRanges (>= 1.31.8), SummarizedExperiment, biomaRt, BSgenome (>= 1.47.3), Rsamtools, ShortRead (>= 1.37.1)
Suggests: rtracklayer, BSgenome.Hsapiens.UCSC.hg19, BSgenome.Scerevisiae.UCSC.sacCer2