GenomicScores
This is the released version of GenomicScores; for the devel version, see GenomicScores.
Infrastructure to work with genomewide position-specific scores
Bioconductor version: Release (3.23)
Provide infrastructure to store and access genomewide position-specific scores within R and Bioconductor.
Author: Robert Castelo [aut, cre], Pau Puigdevall [ctb], Pablo Rodríguez [ctb]
Maintainer: Robert Castelo <robert.castelo at upf.edu>
citation("GenomicScores")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("GenomicScores")
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("GenomicScores")| An introduction to the GenomicScores package | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Annotation, AnnotationHubSoftware, Coverage, Genetics, Infrastructure, Sequencing, Software |
| Version | 2.24.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (9.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5), S4Vectors(>= 0.7.21), GenomicRanges, methods, BiocGenerics(>= 0.13.8) |
| Imports | stats, utils, XML, httr, Biobase, BiocManager, BiocFileCache, IRanges(>= 2.3.23), Biostrings, Seqinfo, GenomeInfoDb(>= 1.45.5), AnnotationHub, rhdf5, DelayedArray, HDF5Array |
| System Requirements | |
| URL | https://github.com/rcastelo/GenomicScores |
| Bug Reports | https://github.com/rcastelo/GenomicScores/issues |
See More
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | GenomicScores_2.24.0.tar.gz |
| Windows Binary (x86_64) | GenomicScores_2.24.0.zip |
| macOS Binary (big-sur-x86_64) | GenomicScores_2.24.0.tgz |
| macOS Binary (sonoma-arm64) | GenomicScores_2.24.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/GenomicScores |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GenomicScores |
| Bioc Package Browser | https://code.bioconductor.org/browse/GenomicScores/ |
| Package Short Url | https://bioconductor.org/packages/GenomicScores/ |
| Package Downloads Report | Download Stats |