Fig. 3

Heatmap of shotgun species and subspecies relative abundance. Relative abundance of a species and b subspecies in the shotgun data; only those selected > 125 times in 500 × 10-fold cross-validated elastic-net penalized Cox regression and with FDR-adjusted q < 0.20 in either the 16S or shotgun data are shown. Ward’s Hierarchical Agglomerative Clustering method was used, column (patient) distance was based on the shotgun JSD (from Fig. 1), and row (species) distance on the Manhattan distance. Species and subspecies are annotated with the direction of their hazard ratio with progression-free survival, and patients are annotated with their combined JSD cluster (from Fig. 1)