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Glimma (version 1.0.0)

Interactive HTML graphics for RNA-seq data

Description

This package generates interactive visualisations of RNA-sequencing data based on output from limma, edgeR or DESeq2. Interactions are built on top of popular static displays from the limma package, providing users with access to gene IDs and sample information. Plots are generated using d3.js and displayed in HTML pages.

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Version

Version

1.0.0

License

GPL-3 | file LICENSE

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Maintainer

Shian Su

Last Published

February 15th, 2017

Functions in Glimma (1.0.0)

glimma

Glimma plot manager
gllink

Plot linkages
hasColumns

Column checker
lymphomaRNAseq

Mouse based RNAseq data for study of smchd1 gene.
glBar

Glimma MD Plot
glBar.default

Glimma MD Plot
glMDPlot.DGELRT

Glimma MD Plot
glMDPlot

Glimma MD Plot
CharToHexCol

String to hex colour converter
glAutoinput

Glimma Autocomplete Input
glMDSPlot.DGEList

Glimma MDS Plot
glMDSPlot

Glimma MDS Plot
NumToHexCol

Numeric to hex colour converter
makeChartJson

JSON converter for chart objects
makeDFJson

JSON converter for data frames
glMDPlot.default

Glimma MD Plot
glMDPlot.DESeqDataSet

Glimma MD Plot
glMDPlot.MArrayLM

Glimma MD Plot
glMDSPlot.default

Glimma MDS Plot
glMDPlot.DGEExact

Glimma MD Plot
glScatter.default

Glimma Scatter Plot
glMDPlot.DESeqResults

Glimma MD Plot
glScatter

Glimma Scatter Plot