epivizr
This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see epivizr.
R Interface to epiviz web app
Bioconductor version: 3.16
This package provides connections to the epiviz web app (http://epiviz.cbcb.umd.edu) for interactive visualization of genomic data. Objects in R/bioc interactive sessions can be displayed in genome browser tracks or plots to be explored by navigation through genomic regions. Fundamental Bioconductor data structures are supported (e.g., GenomicRanges and RangedSummarizedExperiment objects), while providing an easy mechanism to support other data structures (through package epivizrData). Visualizations (using d3.js) can be easily added to the web app as well.
Author: Hector Corrada Bravo, Florin Chelaru, Llewellyn Smith, Naomi Goldstein, Jayaram Kancherla, Morgan Walter, Brian Gottfried
Maintainer: Hector Corrada Bravo <hcorrada at gmail.com>
citation("epivizr")):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("epivizr")
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("epivizr")| Introduction to epivizr | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| Epiviz quick tour | Video |
Details
| biocViews | GUI, Infrastructure, Software, Visualization |
| Version | 2.28.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (10.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5.0), methods |
| Imports | epivizrServer(>= 1.1.1), epivizrData(>= 1.3.4), GenomicRanges, S4Vectors, IRanges, bumphunter, GenomeInfoDb |
| System Requirements | |
| URL |
See More
| Suggests | testthat, roxygen2, knitr, Biobase, SummarizedExperiment, antiProfilesData, hgu133plus2.db, Mus.musculus, BiocStyle, minfi, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | epivizrStandalone, scTreeViz |
| Imports Me | metavizr |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | epivizr_2.28.0.tar.gz |
| Windows Binary | epivizr_2.28.0.zip |
| macOS Binary (x86_64) | epivizr_2.28.0.tgz |
| macOS Binary (arm64) | epivizr_2.28.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/epivizr |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/epivizr |
| Bioc Package Browser | https://code.bioconductor.org/browse/epivizr/ |
| Package Short Url | https://bioconductor.org/packages/epivizr/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.16 | Source Archive |