GenomicScores
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see GenomicScores.
Infrastructure to work with genomewide position-specific scores
Bioconductor version: 3.6
Provide infrastructure to store and access genomewide position-specific scores within R and Bioconductor.
Author: Robert Castelo [aut, cre], Pau Puigdevall [ctb]
Maintainer: Robert Castelo <robert.castelo at upf.edu>
Citation (from within R, enter
citation("GenomicScores")):
Installation
To install this package, start R (version "3.4") 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
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | Annotation, Coverage, Genetics, Infrastructure, Sequencing, Software |
| Version | 1.2.2 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.4), S4Vectors(>= 0.7.21), GenomicRanges, methods, BiocGenerics(>= 0.13.8) |
| Imports | utils, XML, Biobase, IRanges(>= 2.3.23), Biostrings, BSgenome, GenomeInfoDb, AnnotationHub |
| System Requirements | |
| URL | https://github.com/rcastelo/GenomicScores |
| Bug Reports | https://github.com/rcastelo/GenomicScores/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, BSgenome.Hsapiens.UCSC.hg19, phastCons100way.UCSC.hg19, MafDb.1Kgenomes.phase1.hs37d5, SNPlocs.Hsapiens.dbSNP144.GRCh37, VariantAnnotation, TxDb.Hsapiens.UCSC.hg19.knownGene, gwascat, RColorBrewer |
| Linking To | |
| Enhances | |
| Depends On Me | fitCons.UCSC.hg19, MafDb.1Kgenomes.phase1.hs37d5, MafDb.1Kgenomes.phase3.hs37d5, MafDb.ESP6500SI.V2.SSA137.GRCh38, MafDb.ESP6500SI.V2.SSA137.hs37d5, MafDb.ExAC.r1.0.hs37d5, MafDb.ExAC.r1.0.nonTCGA.hs37d5, MafDb.gnomAD.r2.0.1.hs37d5, MafDb.gnomADex.r2.0.1.hs37d5, MafDb.TOPMed.freeze5.hg38, phastCons100way.UCSC.hg19, phastCons100way.UCSC.hg38, phastCons7way.UCSC.hg38 |
| Imports Me | ATACseqQC, RareVariantVis, VariantFiltering |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | GenomicScores_1.2.2.tar.gz |
| Windows Binary | GenomicScores_1.2.2.zip |
| Mac OS X 10.11 (El Capitan) | GenomicScores_1.2.2.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/GenomicScores |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GenomicScores |
| Package Short Url | https://bioconductor.org/packages/GenomicScores/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |