Fig. 4

Sensitivity by total depth at a variant site. a Sensitivity as a function of the total depth at a variant site for the TCGA-LAML SNVs in Set1 (all SNVs after removing intronic and intergenic variants), combining the initial and 40M libraries and adopting callers with default-filters. b Sensitivity as a function of the total depth at a variant site using the Leucegene samples. The sensitivity is computed using the variants in the truth set, combining the calls from all downsampling runs, and using both types of filters. c Median with maximum and minimum sensitivity in recovering the SNVs in the truth set using the Leucegene samples. Only SNVs with total depth \(\ge d\) are considered as called. The sensitivity by depth is computed for each starting library size (colours) and using annotation-filters. Each estimated median sensitivity (and minimum and maximum) is the median across random downsampling runs at the same library size. The red dotted lines represent the 80%, 90% and 95% sensitivity thresholds