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The results of GERP analysis were visualized using the java-based graphical user interface, Application for Browsing Constraints (ABC) [20].
Results from surface analysis were visualized using Freesurfer's Freeview software.
Results from this analysis were visualized using the ComparativeMarkerSelectionViewer module.
Demographic plots for each analysis were visualized using Tracer v1.0.1 [ 69].
The results of this analysis were visualized using GenAlyzer 0.81b [ 47].
The top hits from this analysis were visualized using Integrated Genomics Viewer, and putative stable regions that were grossly overrepresented (more than 100-fold) compared with the rest of the mRNA were identified.
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Ploidy analysis was visualized using a violin plot.
Survival analysis was visualized using Kaplan-Meier diagrams.
Tree predicted by the phylogenetic analysis was visualized using FigTree version 1.4.0 (http://tree.bio.ed.ac.uk/software/, last accessed October 16, 2014).
The output from each analysis was visualized using Tracer v1.5 [ 128] to assess convergence and effective sampling size (ESS) of sampling parameters.
The results of the meta-analysis were visualized using forest plots.
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