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hicVennDiagram

Venn Diagram for genomic interaction data


Bioconductor version: Release (3.18)

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 "4.3") 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 1.0.1
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
System Requirements
URL https://github.com/jianhong/hicVennDiagram
Bug Reports https://github.com/jianhong/hicVennDiagram/issues
See More
Suggests BiocStyle, knitr, rmarkdown, testthat, GenomicRanges, ChIPpeakAnno, grid
Linking To
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Build Report Build Report

Package Archives

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

Source Package hicVennDiagram_1.0.1.tar.gz
Windows Binary hicVennDiagram_1.0.1.zip (64-bit only)
macOS Binary (x86_64) hicVennDiagram_1.0.1.tgz
macOS Binary (arm64) hicVennDiagram_1.0.0.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
Old Source Packages for BioC 3.18 Source Archive