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Table 1 Comparison of the improvement in ViQuaS and ShoRAH with and without using the estimated upper bound for s f ( ŝ f ) under different quasispecies population characteristics and NGS sequencing characteristics when Diversity > 3%

From: Accurate reconstruction of viral quasispecies spectra through improved estimation of strain richness

Sample Set Name

Method

Precisionwithout ŝ f

Precisionwith ŝ f

F-scorewithout ŝ f

F-scoreWith ŝ f

SS1

ViQuaS

0.782

0.857

0.830

0.875

 

ShoRAH

0.657

0.710

0.682

0.717

SS2

ViQuaS

0.786

0.845

0.851

0.887

 

ShoRAH

0.791

0.809

0.805

0.816

SS3

ViQuaS

0.499

0.628

0.560

0.647

 

ShoRAH

0.381

0.442

0.403

0.445

SS4

ViQuaS

0.830

0.853

0.853

0.867

 

ShoRAH

0.776

0.815

0.778

0.803

SS5

ViQuaS

0.778

0.841

0.827

0.865

 

ShoRAH

0.664

0.718

0.687

0.723

SS6

ViQuaS

0.566

0.661

0.594

0.656

 

ShoRAH

0.405

0.473

0.420

0.468

SS7

ViQuaS

0.765

0.821

0.786

0.818

 

ShoRAH

0.000

0.000

0.000

0.000

SS8

ViQuaS

0.776

0.829

0.796

0.827

 

ShoRAH

0.000

0.000

0.000

0.000