Fig. 6

The web interface of iCAGES, as demonstrated using data from Imielinski et al. a The submission page for iCAGES. Users can enter data with the VCF format (default) or with ANNOVAR input format used in the ANNOVAR package. b Dynamic form for advanced users. Users can click “Advanced Options” and enter additional information, such as structural variations in BED format, cancer subtype, and drugs that this patient has been using. c Bubble plot output of the iCAGES package. The size of the bubbles indicates the weight of the iCAGES score and different colors indicate the category of the gene. Red, blue, and green indicate that this gene belongs to the Cancer Gene Census, the KEGG cancer pathway, or neither category, respectively. Pink bubbles that are connected to blue, green or red bubbles indicate targeted drugs. d The corresponding bar plot of the output. The length of the bar indicates the weight of the iCAGES score and different colors indicate the category of the gene