epivizr: R Interface to epiviz web app

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.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("epivizr")
AuthorHector Corrada Bravo, Florin Chelaru, Llewellyn Smith, Naomi Goldstein, Jayaram Kancherla, Morgan Walter, Brian Gottfried
Bioconductor views GUI Infrastructure Visualization
Date of publicationNone
MaintainerHector Corrada Bravo <hcorrada@gmail.com>
LicenseArtistic-2.0
Version2.6.0

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
R
R/EpivizApp-class.R R/EpivizChart-class.R R/EpivizChartMgr-class.R R/restartEpiviz.R R/settings_utils.R R/startEpiviz.R R/vignette_data.R
README.md
build
build/vignette.rds
data
data/tcga_colon_blocks.rda
data/tcga_colon_curves.rda
data/tcga_colon_expression.rda
inst
inst/NEWS.Rd
inst/doc
inst/doc/IntroToEpivizr.R
inst/doc/IntroToEpivizr.Rmd
inst/doc/IntroToEpivizr.html
man
man/EpivizApp-class.Rd man/EpivizChart-class.Rd man/EpivizChartMgr-class.Rd man/restartEpiviz.Rd man/show-EpivizChart-method.Rd man/startEpiviz.Rd man/tcga_colon_blocks.Rd man/tcga_colon_curves.Rd man/tcga_colon_expression.Rd
tests
tests/connected_tests
tests/connected_tests/helper-makeEset.R tests/connected_tests/helper-organismdb.R tests/connected_tests/helper-phantomjs.R tests/connected_tests/helper-setOptions.R tests/connected_tests/helper-startmgr.R tests/connected_tests/helper-wait_until.R
tests/connected_tests/index.html
tests/connected_tests/test-add_charts.R tests/connected_tests/test-app_update.R tests/connected_tests/test-browsing.R tests/connected_tests/test-creation.R tests/connected_tests/test-manage_charts.R tests/connected_tests/test-plot_app.R tests/connected_tests/test-startEpiviz.R
tests/testthat
tests/testthat.R tests/testthat/helper-makeEset.R tests/testthat/helper-organismdb.R tests/testthat/helper-setOptions.R tests/testthat/helper-startmgr.R tests/testthat/helper-wait_until.R tests/testthat/test-add_charts.R tests/testthat/test-app_update.R tests/testthat/test-browsing.R tests/testthat/test-creation.R tests/testthat/test-manage_charts.R tests/testthat/test-plot_app.R tests/testthat/test-plot_methods.R tests/testthat/test-restartEpiviz.R tests/testthat/test-startEpiviz.R
vignettes
vignettes/IntroToEpivizr.Rmd

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