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The goal of MineICA is to perform Independent Component Analysis (ICA) on multiple transcriptome datasets, integrating additional data (e.g molecular, clinical and pathological). This Integrative ICA helps the biological interpretation of the components by studying their association with variables (e.g sample annotations) and gene sets, and enables the comparison of components from different datasets using correlation-based graph.
Generator of web pages which display interactive network/graph visualizations with D3js, jQuery and Raphael.
Implements quantile smoothing as introduced in: Quantile smoothing of array CGH data; Eilers PH, de Menezes RX; Bioinformatics. 2005 Apr 1;21(7):1146-53.
OmicCircos is an R application and package for generating high-quality circular plots for omics data.
Plots data associated with arbitrary genomic intervals along chromosomal ideogram.
Interactvive graphics in a web browser from R, using websockets and JSON.