epivizrChart
This is the released version of epivizrChart; for the devel version, see epivizrChart.
R interface to epiviz web components
Bioconductor version: Release (3.23)
This package provides an API for interactive visualization of genomic data using epiviz web components. Objects in R/BioConductor can be used to generate interactive R markdown/notebook documents or can be visualized in the R Studio's default viewer.
Author: Brian Gottfried [aut], Jayaram Kancherla [aut], Hector Corrada Bravo [aut, cre]
Maintainer: Hector Corrada Bravo <hcorrada at gmail.com>
citation("epivizrChart")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("epivizrChart")
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("epivizrChart")| Introduction to epivizrChart | HTML | R Script |
| Visualizing `RangeSummarizedExperiment` objects Shiny Apps using epivizrChart | HTML | R Script |
| Visualizing Files with epivizrChart | HTML | R Script |
| Visualizing genomic data in Shiny Apps using epivizrChart | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GUI, Software, Visualization |
| Version | 1.34.0 |
| In Bioconductor since | BioC 3.6 (R-3.4) (9 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5.0) |
| Imports | epivizrData(>= 1.5.1), epivizrServer, htmltools, rjson, methods, BiocGenerics |
| System Requirements | |
| URL |
See More
| Suggests | testthat, roxygen2, knitr, Biobase, GenomicRanges, S4Vectors, IRanges, SummarizedExperiment, antiProfilesData, hgu133plus2.db, Mus.musculus, BiocStyle, Homo.sapiens, shiny, minfi, Rsamtools, rtracklayer, RColorBrewer, magrittr, AnnotationHub |
| 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 | epivizrChart_1.34.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | epivizrChart_1.34.0.tgz |
| macOS Binary (sonoma-arm64) | epivizrChart_1.34.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/epivizrChart |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/epivizrChart |
| Bioc Package Browser | https://code.bioconductor.org/browse/epivizrChart/ |
| Package Short Url | https://bioconductor.org/packages/epivizrChart/ |
| Package Downloads Report | Download Stats |