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iSEEde

iSEE extension for panels related to differential expression analysis

Bioconductor version: 3.23 · Package version: 1.10.0

This package contains diverse functionality to extend the usage of the iSEE package, including additional classes for the panels or modes facilitating the analysis of differential expression results. This package does not perform differential expression. Instead, it provides methods to embed precomputed differential expression results in a SummarizedExperiment object, in a manner that is compatible with interactive visualisation in iSEE applications.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("iSEEde")

Details

MaintainerKevin Rue-Albrecht <kevinrue67@gmail.com>
AuthorKevin Rue-Albrecht [aut, cre] (ORCID: <https://orcid.org/0000-0003-3899-3872>), Thomas Sandmann [ctb] (ORCID: <https://orcid.org/0000-0002-6601-8890>), Denali Therapeutics [fnd]
LicenseArtistic-2.0
URLhttps://github.com/iSEE/iSEEde
Bug Reportshttps://support.bioconductor.org/t/iSEEde
Downloads rank222
Source branchRELEASE_3_23
biocViewsDifferentialExpression, Infrastructure, Software

Documentation

Download

Dependencies

Depends: iSEE

Imports: DESeq2, edgeR, methods, S4Vectors, shiny, SummarizedExperiment

Suggests: airway, BiocStyle, covr, knitr, limma, org.Hs.eg.db, RefManageR, rmarkdown, scuttle, sessioninfo, statmod, testthat (>= 3.0.0)

Reverse dependencies

Suggests Me (1): iSEEpathways