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Table 3 Experimental results for yeast PacBio data set D2-P

From: A comprehensive evaluation of long read error correction methods

Method

# Reads

# Bases

# Aligned

# Aligned

Maximum

N50

Genome

Alignment

CPU time

Wall time

Memory

  

(Mbp)

reads

bases (Mbp)

length (bp)

(bp)

fraction (%)

identity (%)

(hh:mm:ss)

(hh:mm:ss)

usage (GB)

Original

239408

1462.7

235620

1332.6

35196

8656

99.976

87.2637

-

-

-

Non-hybrid methods

FLAS

173187

1093.2

173046

1078.8

30046

8132

99.976

99.5777

11:46:31

01:15:40

7.9

LoRMA

650467

1142.0

650333

1141.4

18127

2323

99.951

99.7583

172:24:38

07:03:03

72.9

Canu

38228

453.2

38172

446.7

28748

12021

99.975

99.5864

15:18:34

00:50:12

6.5

Short-read-assembly-based methods

HG-CoLoR

-

-

-

-

-

-

-

-

-

-

-

FMLRC

238706

1380.8

236883

1311.0

33658

8185

99.977

99.3889

07:52:17

00:28:55

5.5

HALC

238787

1395.4

238097

1287.6

34785

8270

99.976

99.0796

52:12:11

09:45:10

29.0

Jabba

202980

1087.2

202879

1086.6

30141

7847

95.627

99.9832

00:38:30

00:04:57

21.4

LoRDEC

238847

1405.0

237278

1297.1

34896

8326

99.978

97.9568

01:10:03

00:57:17

1.9

ECTools

130863

946.9

130832

943.1

28749

8412

99.810

99.7712

938:25:28

58:25:00

4.3

Short-read-alignment-based methods

Hercules

239389

1460.3

235630

1330.4

35196

8644

99.976

87.6711

87:53:55

03:18:41

247.8

CoLoRMap

239309

1429.6

237135

1321.3

34850

8409

99.976

96.3912

18:44:48

03:07:34

37.3

Nanocorr

-

-

-

-

-

-

-

-

-

>72:00:00

-

proovread

238992

1412.4

236519

1298.0

35122

8369

99.978

97.9568

184:02:07

23:45:37

47.9

LSC

-

-

-

-

-

-

-

-

-

>72:00:00

-

  1. Note: HG-CoLoR reported an error when correcting this dataset