Fig. 2

PROMO’s graphical user interface. a PROMO’s main screen. The genomic matrix is in the center with columns corresponding to samples and rows to features. Colors represent feature values according to the scale on the right. The colorful label bar beneath the matrix displays the currently selected sample label. Analysis steps are documented in the textbox on the bottom of the screen. Key commands are available on the tabbed panels on the left of the screen. b The Preprocessing panel allows filtering, normalization, and sorting of the genomic data. c Clustering the dataset’s samples and features using various algorithms and distance functions is available through the Clustering panel. Resulting clustering solutions are aggregated for future review and filtering. d The Analysis panel provides access to several visualization and exploratory tools like PCA, t-SNE, survival analysis, biomarker discovery, GO enrichment and automatic classifier generation. e In the Dataset Collection panel, several genomic matrices can be assembled into a multi-omic dataset collection, and then analyzed together