Glimma

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see Glimma.

Interactive HTML graphics


Bioconductor version: 3.9

This package generates interactive visualisations for analysis of RNA-sequencing data using output from limma, edgeR or DESeq2 packages in an HTML page. The interactions are built on top of the popular static representations of analysis results in order to provide additional information.

Author: Shian Su [aut, cre], Matthew Ritchie [aut], Charity Law [aut], Stuart Lee [ctb]

Maintainer: Shian Su <su.s at wehi.edu.au>

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

Installation

To install this package, start R (version "3.6") and enter:


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

BiocManager::install("Glimma")

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Glimma")
Glimma Vignette PDF R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews DifferentialExpression, GeneExpression, ImmunoOncology, Microarray, RNASeq, ReportWriting, Sequencing, Software, Visualization
Version 1.12.0
In Bioconductor since BioC 3.3 (R-3.3) (8 years)
License GPL-3 | file LICENSE
Depends R (>= 3.4.0)
Imports edgeR, grDevices, jsonlite, methods, stats, S4Vectors, utils
System Requirements
URL https://github.com/Shians/Glimma
Bug Reports https://github.com/Shians/Glimma/issues
See More
Suggests BiocStyle, IRanges, GenomicRanges, SummarizedExperiment, DESeq2, limma, testthat, knitr, rmarkdown, pryr
Linking To
Enhances
Depends On Me RNAseq123
Imports Me EGSEA
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package Glimma_1.12.0.tar.gz
Windows Binary Glimma_1.12.0.zip
Mac OS X 10.11 (El Capitan) Glimma_1.12.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Glimma
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Glimma
Bioc Package Browser https://code.bioconductor.org/browse/Glimma/
Package Short Url https://bioconductor.org/packages/Glimma/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive