hicVennDiagram
This is the development version of hicVennDiagram; for the stable release version, see hicVennDiagram.
Venn Diagram for genomic interaction data
Bioconductor version: Development (3.21)
A package to generate high-resolution Venn and Upset plots for genomic interaction data from HiC, ChIA-PET, HiChIP, PLAC-Seq, Hi-TrAC, HiCAR and etc. The package generates plots specifically crafted to eliminate the deceptive visual representation caused by the counts method.
Author: Jianhong Ou [aut, cre] (ORCID:
Maintainer: Jianhong Ou <jianhong.ou at duke.edu>
citation("hicVennDiagram")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("hicVennDiagram")
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("hicVennDiagram")| hicVennDiagram Vignette: overview | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DNA3DStructure, HiC, Software, Visualization |
| Version | 1.5.0 |
| In Bioconductor since | BioC 3.18 (R-4.3) (1 year) |
| License | GPL-3 |
| Depends | R (>= 4.3.0) |
| Imports | GenomeInfoDb, GenomicRanges, IRanges, InteractionSet, rtracklayer, ggplot2, ComplexUpset, reshape2, eulerr, S4Vectors, methods, utils, htmlwidgets, svglite |
| System Requirements | |
| URL | https://github.com/jianhong/hicVennDiagram |
| Bug Reports | https://github.com/jianhong/hicVennDiagram/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat, ChIPpeakAnno, grid, TxDb.Hsapiens.UCSC.hg38.knownGene |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | hicVennDiagram_1.5.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/hicVennDiagram |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/hicVennDiagram |
| Bioc Package Browser | https://code.bioconductor.org/browse/hicVennDiagram/ |
| Package Short Url | https://bioconductor.org/packages/hicVennDiagram/ |
| Package Downloads Report | Download Stats |