RT Journal Article
SR Electronic
T1 Dashboard-style interactive plots for RNA-seq analysis are R Markdown ready with <em>Glimma</em> 2.0
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2021.07.30.454464
DO 10.1101/2021.07.30.454464
A1 Hasaru Kariyawasam
A1 Shian Su
A1 Oliver Voogd
A1 Matthew E. Ritchie
A1 Charity W. Law
YR 2021
UL http://biorxiv.org/content/early/2021/08/01/2021.07.30.454464.abstract
AB Glimma 1.0 introduced intuitive, point-and-click interactive graphics for differential gene expression analysis. Here, we present a major update to Glimma which brings improved inter-activity and reproducibility using high-level visualisation frame-works for R and JavaScript. Glimma 2.0 plots are now readily embeddable in R Markdown, thus allowing users to create reproducible reports containing interactive graphics. The revamped multidimensional scaling plot features dashboard-style controls allowing the user to dynamically change the colour, shape and size of sample points according to different experimental conditions. Interactivity was enhanced in the MA-style plot for comparing differences to average expression, which now supports selecting multiple genes, export options to PNG, SVG or CSV formats and includes a new volcano plot function. Feature-rich and user-friendly, Glimma makes exploring data for gene expression analysis more accessible and intuitive and is available on Bioconductor and GitHub.Competing Interest StatementThe authors have declared no competing interest.