iSEE

DOI: 10.18129/B9.bioc.iSEE    

Interactive SummarizedExperiment Explorer

Bioconductor version: Release (3.7)

Provides functions for creating an interactive Shiny-based graphical user interface for exploring data stored in SummarizedExperiment objects, including row- and column-level metadata. Particular attention is given to single-cell data in a SingleCellExperiment object with visualization of dimensionality reduction results.

Author: Charlotte Soneson [aut, cre], Aaron Lun [aut], Federico Marini [aut], Kevin Rue-Albrecht [aut]

Maintainer: Federico Marini <marinif at uni-mainz.de>

Citation (from within R, enter citation("iSEE")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("iSEE")

Documentation

HTML R Script iSEE User's Guide
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews CellBasedAssays, Clustering, DimensionReduction, FeatureExtraction, GUI, GeneExpression, SingleCell, Software, Transcription, Transcriptomics, Visualization
Version 1.0.1
License MIT + file LICENSE
Depends R (>= 3.5), SummarizedExperiment, SingleCellExperiment
Imports methods, BiocGenerics, S4Vectors, utils, stats, shiny, shinydashboard, shinyAce, shinyjs, DT, rintrojs, ggplot2, colourpicker, igraph, vipor, mgcv, reshape2, rentrez, AnnotationDbi, graphics, grDevices, viridisLite, cowplot, scales, dplyr
LinkingTo
Suggests testthat, BiocStyle, knitr, rmarkdown, scRNAseq, scater, Rtsne, irlba, RColorBrewer, viridis, org.Mm.eg.db, htmltools
SystemRequirements
Enhances ExperimentHub
URL https://github.com/csoneson/iSEE
BugReports https://github.com/csoneson/iSEE/issues
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package iSEE_1.0.1.tar.gz
Windows Binary iSEE_1.0.1.zip
Mac OS X 10.11 (El Capitan) iSEE_1.0.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/iSEE
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/iSEE
Package Short Url http://bioconductor.org/packages/iSEE/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.7 Source Archive

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