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Table 4 Long-read and hybrid correction assembly statistics

From: FMLRC: Hybrid long read error correction using an FM-index

Dataset

Method

# contigs

N50

Genome fraction

Error rate

E. coli K12

Canu + Miniasm

1

4631922

99.832

0.00444

Genome: 5Mb

CoLoRMap + Miniasm

1

4723063

84.485

0.02322

Pacbio: 450Mb

FMLRC + Miniasm

1

4646838

99.757

0.00029

Illumina: 3.4Gb

Jabba + Miniasm

76

72751

92.923

0.00005

 

LoRDEC + Miniasm

1

4688727

97.504

0.00321

 

LoRMA + Miniasm

107

64214

89.871

0.00099

 

Sprai + Miniasm

1

4639974

99.989

0.00092

 

Miniasm

1

4783415

0.002

0.01333

 

Canu

2

4656585

99.998

0.00012

 

hybridSPAdes

2

4469733

99.967

0.0001078

 

DBG2OLC

2

4585967

98.210

0.00225

 

Cerulean

16

1258842

98.959

0.09500

S. cerevisiae W303

Canu + Miniasm

36

729798

89.739

0.00521

Genome: 12Mb

CoLoRMap + Miniasm

23

766539

83.464

0.00761

Pacbio: 1.3Gb

FMLRC + Miniasm

32

771324

87.717

0.00175

Illumina: 18Gb

Jabba + Miniasm

186

62337

72.239

0.00008

 

LoRDEC + Miniasm

61

597849

85.563

0.00941

 

LoRMA + Miniasm

292

49850

74.632

0.00103

 

Sprai + Miniasm

39

561985

88.697

0.00193

 

Miniasm

29

566484

0.009

0.03738

 

Canu

26

777664

90.955

0.00068

 

hybridSPAdes

229

568823

87.303

0.00899

 

DBG2OLC

32

530806

0.067

0.03407

 

Cerulean

78

466556

 

0.03687

A. thaliana Ler-0

Canu + Miniasm

2100

74153

81.844

0.01410

Genome: 120Mb

CoLoRMap + Miniasm

963

404022

60.225

0.01853

Pacbio: 11Gb

FMLRC + Miniasm

1923

57751

67.275

0.00401

Illumina: 13Gb

Jabba + Miniasm

1632

57307

62.796

0.00041

 

LoRDEC + Miniasm

2232

30229

43.088

0.01107

 

LoRMA + Miniasm

34

26316

0.361

0.00448

 

Sprai + Miniasm

1475

169744

91.070

0.00824

 

Miniasm

740

615512

0.003

0.03409

 

Canu

419

835253

96.123

0.00760

 

DBG2OLC

440

754404

87.477

0.00388

  1. Miniasm does not perform either read correction or consensus calling, so the resulting assembly has the same error profile of the input read