DOI: 10.18129/B9.bioc.iSEE    

This is the development version of iSEE; for the stable release version, see iSEE.

Interactive SummarizedExperiment Explorer

Bioconductor version: Development (3.15)

Create an interactive Shiny-based graphical user interface for exploring data stored in SummarizedExperiment objects, including row- and column-level metadata. The interface supports transmission of selections between plots and tables, code tracking, interactive tours, interactive or programmatic initialization, preservation of app state, and extensibility to new panel types via S4 classes. Special attention is given to single-cell data in a SingleCellExperiment object with visualization of dimensionality reduction results.

Author: Kevin Rue-Albrecht <kevinrue67 at>, Federico Marini <marinif at>, Charlotte Soneson <charlottesoneson at>, Aaron Lun <infinite.monkeys.with.keyboards at>

Maintainer: Kevin Rue-Albrecht <kevinrue67 at>

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


To install this package, start R (version "4.2") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


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biocViews CellBasedAssays, Clustering, DimensionReduction, FeatureExtraction, GUI, GeneExpression, ImmunoOncology, SingleCell, Software, Transcription, Transcriptomics, Visualization
Version 2.7.0
In Bioconductor since BioC 3.7 (R-3.5) (3.5 years)
License MIT + file LICENSE
Depends SummarizedExperiment, SingleCellExperiment
Imports methods, BiocGenerics, S4Vectors, utils, stats, shiny, shinydashboard, shinyAce, shinyjs, DT, rintrojs, ggplot2, ggrepel, colourpicker, igraph, vipor, mgcv, graphics, grDevices, viridisLite, shinyWidgets, ComplexHeatmap, circlize, grid
Suggests testthat, BiocStyle, knitr, rmarkdown, scRNAseq, TENxPBMCData, scater, DelayedArray, HDF5Array, RColorBrewer, viridis, htmltools
Depends On Me iSEEu
Imports Me
Suggests Me DuoClustering2018, HCAData, schex, TabulaMurisData, TabulaMurisSenisData
Links To Me
Build Report  

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