hicVennDiagram

Venn Diagram for genomic interaction data


Bioconductor version: Release (3.19)

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]

Maintainer: Jianhong Ou <jianhong.ou at duke.edu>

Citation (from within R, enter citation("hicVennDiagram")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

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 PDF
NEWS Text

Details

biocViews DNA3DStructure, HiC, Software, Visualization
Version 1.2.0
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_1.2.0.tar.gz
Windows Binary (x86_64) hicVennDiagram_1.2.0.zip
macOS Binary (x86_64) hicVennDiagram_1.2.0.tgz
macOS Binary (arm64) hicVennDiagram_1.2.0.tgz
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