Glimma: interactive graphics for gene expression analysis

• DOI: 10.1093/bioinformatics/btx094
• Publication Date: 2017-02-15T08:58:08Z
• Authors: Shian Su; Charity W Law; Casey Ah-Cann; Marie-Liesse Asse...; Marnie E Blewitt; Matthew E Ritchie
• Keywords: Bioconductor; Interactivity; R package

Abstract Motivation Summary graphics for RNA-sequencing and microarray gene expression analyses may contain upwards of tens thousands points. Details about certain genes or samples interest are easily obscured in such dense summary displays. Incorporating interactivity into plots would enable additional information to be displayed on demand facilitate intuitive data exploration. Results The open-source Glimma package creates interactive exploring analysis with a few simple R commands. It extends popular found the limma package, as multi-dimensional scaling mean-difference plots, allow individual points queried annotation upon hovering selecting particular also offers links between so that more can revealed demand. is widely applicable, supporting from number well-established Bioconductor workflows (limma, edgeR DESeq2) uses D3/JavaScript produce HTML pages displays effective exploration by end-users. shared bioinformaticians biologists, enhancing reporting capabilities while maintaining reproducibility. Availability Implementation available http://bioconductor.org/packages/Glimma/.