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.

AuthorHector Corrada Bravo, Florin Chelaru, Llewellyn Smith, Naomi Goldstein, Jayaram Kancherla, Morgan Walter
Date of publicationNone
MaintainerHector Corrada Bravo <hcorrada@gmail.com>
LicenseArtistic-2.0
Version2.4.1

View on Bioconductor

Files

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

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.