Fig. 3

EukDetect is sensitive and accurate for yeasts, protists, and worms at low sequence coverage. a Number of marker genes with at least one aligned read per species up to 1x genome coverage. Horizontal red line indicates the total number of marker genes per species (i.e., the best possible performance). b Number of marker genes with at least one aligned read per species up to 0.05x genome coverage. Vertical red line indicates a detection cutoff where 4 or more reads align to 2 or more markers in 8 out of 10 simulations or more. c The number of species reported by EukDetect for two closely related Entamoeba species before and after minimum read count and off-target alignment filtering. One species is the correct result. Simulated genome coverages are the same as in panel d. d EukDetect performance on simulated sequencing data from mixtures of two closely related Entamoeba species at different genome coverages. Dot colors indicate which species were detected in 8 out of 10 simulations or more. Dashed line indicates the lowest detectable coverage possible by EukDetect when run on each species individually. Axes not to scale