Left: Number of reads, lineage score (LS), k-mer
score (KS), and susceptibility scores (SS) for individual antibiotics as a
function of time from the start of sequencing. In the top left plot, the times
of stabilization are shown for the predicted lineage and susceptibility or
resistance to all antibiotics. Blue and red colors correspond to susceptibility
and non-susceptibility calls, respectively. The dashed lines mark selected time
points (1 minute, 5 minutes, and the end of sequencing). Right:
a)-c) Similarity rank plots for selected time points (1 minute, 5 minutes, and
the end of sequencing). The bars correspond to 70 best matching strains in the
database and display the normalized weights, which serve as a proxy to inverted
genetic distance. They are arranged by rank and colored according to the
presence in the predicted, alternative or another lineage. The bottom panels
display the resistance profiles of the strains.