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Glimma

Interactive visualizations for gene expression analysis

Bioconductor version: 3.24 · Package version: 2.23.1

This package produces interactive visualizations for RNA-seq data analysis, utilizing output from limma, edgeR, or DESeq2. It produces interactive htmlwidgets versions of popular RNA-seq analysis plots to enhance the exploration of analysis results by overlaying interactive features. The plots can be viewed in a web browser or embedded in notebook documents.

Installation

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

BiocManager::install("Glimma")

Details

MaintainerShian Su <su.s@wehi.edu.au>
AuthorShian Su [aut, cre], Hasaru Kariyawasam [aut], Oliver Voogd [aut], Matthew Ritchie [aut], Charity Law [aut], Stuart Lee [ctb], Isaac Virshup [ctb]
LicenseGPL-3
URLhttps://github.com/hasaru-k/GlimmaV2
Bug Reportshttps://github.com/hasaru-k/GlimmaV2/issues
Downloads rank1421
Source branchdevel
biocViewsDifferentialExpression, GeneExpression, Microarray, RNASeq, ReportWriting, Sequencing, Software, Visualization

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source packageGlimma_2.23.1.tar.gz
Windows binary (x86_64)Glimma_2.23.1.zip
macOS binary (arm64)Glimma_2.23.1.tgz
macOS binary (x86_64)Glimma_2.23.1.tgz
Dependencies

Depends: R (>= 4.0.0)

Imports: htmlwidgets, edgeR, DESeq2, limma, SummarizedExperiment, stats, jsonlite, methods, S4Vectors

Suggests: testthat, knitr, rmarkdown, BiocStyle, IRanges, GenomicRanges, purrr, AnnotationHub, scRNAseq, scater, scran, scRNAseq

Reverse dependencies

Depends On Me (1): RNAseq123

Imports Me (1): affycoretools

Suggests Me (1): mastR