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biovizBase
This is thereleased version of biovizBase; for the devel version, seebiovizBase.
Basic graphic utilities for visualization of genomic data.
Bioconductor version: Release (3.22)
The biovizBase package is designed to provide a set of utilities, color schemes and conventions for genomic data. It serves as the base for various high-level packages for biological data visualization. This saves development effort and encourages consistency.
Author: Tengfei Yin [aut], Michael Lawrence [aut, ths, cre], Dianne Cook [aut, ths], Johannes Rainer [ctb]
Maintainer: Michael Lawrence <lawremi at gmail.com>
citation("biovizBase")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("biovizBase")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("biovizBase")| An Introduction to biovizBase | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Infrastructure,Preprocessing,Software,Visualization |
| Version | 1.58.0 |
| In Bioconductor since | BioC 2.9 (R-2.14) (14 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5.0), methods |
| Imports | grDevices, stats,scales,Hmisc,RColorBrewer,dichromat,BiocGenerics,S4Vectors(>= 0.23.19),IRanges(>= 1.99.28),Seqinfo,GenomeInfoDb(>= 1.45.5),GenomicRanges(>= 1.61.1),SummarizedExperiment(>= 1.39.1),Biostrings(>= 2.77.2),Rsamtools(>= 2.25.1),GenomicAlignments(>= 1.45.1),GenomicFeatures(>= 1.61.4),AnnotationDbi,VariantAnnotation(>= 1.55.1),ensembldb(>= 2.33.1),AnnotationFilter(>= 0.99.8),rlang |
| System Requirements | |
| URL |
See More
| Suggests | BSgenome.Hsapiens.UCSC.hg19,TxDb.Hsapiens.UCSC.hg19.knownGene,BSgenome,rtracklayer,EnsDb.Hsapiens.v75,RUnit |
| Linking To | |
| Enhances | |
| Depends On Me | CAFE |
| Imports Me | ChIPexoQual,ggbio,Gviz,karyoploteR,Pviz,Rqc |
| Suggests Me | Damsel,derfinderPlot,FRASER,NanoStringNCTools,OUTRIDER,R3CPET,regionReport,StructuralVariantAnnotation,Signac |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | biovizBase_1.58.0.tar.gz |
| Windows Binary (x86_64) | biovizBase_1.58.0.zip (64-bit only) |
| macOS Binary (x86_64) | biovizBase_1.58.0.tgz |
| macOS Binary (arm64) | biovizBase_1.58.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/biovizBase |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/biovizBase |
| Bioc Package Browser | https://code.bioconductor.org/browse/biovizBase/ |
| Package Short Url | https://bioconductor.org/packages/biovizBase/ |
| Package Downloads Report | Download Stats |