hicVennDiagram

DOI: 10.18129/B9.bioc.hicVennDiagram  

This is the development version of hicVennDiagram; for the stable release version, see hicVennDiagram.

Venn Diagram for genomic interaction data

Bioconductor version: Development (3.19)

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>

Installation

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

 

HTML	R Script	hicVennDiagram Vignette: overview
PDF		Reference Manual
Text		NEWS

Details

biocViews	DNA3DStructure, HiC, Software, Visualization
Version	1.1.0
In Bioconductor since	BioC 3.18 (R-4.3) (< 6 months)
License	GPL-3
Depends	R (>= 4.3.0)
Imports	InteractionSet, rtracklayer, ggplot2, ComplexUpset, reshape2, eulerr, S4Vectors, methods, utils, htmlwidgets, svglite
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown, testthat, GenomicRanges, ChIPpeakAnno, grid
SystemRequirements
Enhances
URL	https://github.com/jianhong/hicVennDiagram
BugReports	https://github.com/jianhong/hicVennDiagram/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	hicVennDiagram_1.1.0.tar.gz
Windows Binary	hicVennDiagram_1.1.0.zip (64-bit only)
macOS Binary (x86_64)	hicVennDiagram_1.1.0.tgz
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