Fig. 6
Overlay of BEAST reconstructed demographic history and clinical records of patient viral load (serum) for patient 11. X-axis – Timeline represented in days, going forward in time from left to right. Green arrows point out the two timepoints that were used for single-virion sequencing. Y-axis labeled “Viral load” – corresponding to red line tracing all available records of patient viral load (log10 scale) over time. Y-axis labeled “BEAST Ne” - Effective population size over time as simulated by BEAST (log10 scale) shown by black line (plotted values are local medians, with 95% highest probability density (HPD) confidence interval colored in blue)