biovizBase
Basic graphic utilities for visualization of genomic data.
Bioconductor version: 3.23 · Package version: 1.60.0
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("biovizBase")Details
| Maintainer | Michael Lawrence <lawremi@gmail.com> |
| Author | Tengfei Yin [aut], Michael Lawrence [aut, ths, cre], Dianne Cook [aut, ths], Johannes Rainer [ctb] |
| License | Artistic-2.0 |
| Downloads rank | 6476 |
| Source branch | RELEASE_3_23 |
| biocViews | Infrastructure, Preprocessing, Software, Visualization |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | biovizBase_1.60.0.tar.gz |
| Windows binary (x86_64) | biovizBase_1.60.0.zip |
| macOS binary (arm64) | biovizBase_1.60.0.tgz |
| macOS binary (x86_64) | biovizBase_1.60.0.tgz |
Dependencies
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
Suggests: BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene, BSgenome, rtracklayer, EnsDb.Hsapiens.v75, RUnit
Reverse dependencies
Depends On Me (1): CAFE
Imports Me (7): BubbleTree, ChIPexoQual, ggbio, Gviz, karyoploteR, Pviz, Rqc
Suggests Me (10): Damsel, derfinderPlot, FRASER, NanoStringNCTools, OUTRIDER, R3CPET, regionReport, shiny.gosling, Signac, StructuralVariantAnnotation