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Table 4 Recall rates for clustering of mRNA simulated reads(10000 reads, k =3, 4 clusters) for different measures, error rates and read length

From: Clustering of reads with alignment-free measures and quality values

 

read length = 300

 

read length = 400

 

(a)

 

(b)

Distance

No errors

3 %

5 %

10 %

 

No Errors

3 %

5 %

10 %

 

4 clusters

 

4 clusters

\(D^{*}_{2}\)

0,680

0,667

0,658

0,625

 

0,713

0,700

0,697

0,672

\(D^{*q}_{2}\) AQP

0,680

0,672

0,673

0,650

 

0,713

0,712

0,710

0,693

\(D^{*q}_{2}\) AQP q-red

0,680

0,671

0,673

0,650

 

0,713

0,711

0,711

0,694

\(D^{*q}_{2}\) AWP

0,616

0,610

0,608

0,601

 

0,643

0,636

0,632

0,623

\(D^{*q}_{2}\) AWP q-red

0,616

0,610

0,607

0,602

 

0,643

0,635

0,631

0,622

L 2

0,610

0,600

0,602

0,581

 

0,638

0,630

0,624

0,614

KL

0,617

0,604

0,601

0,577

 

0,649

0,632

0,628

0,618

Symm, KL

0,613

0,603

0,599

0,576

 

0,647

0,632

0,627

0,616

D 2

0,601

0,593

0,588

0,575

 

0,626

0,618

0,615

0,604

  1. Best results are in bold.