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Table 3 Benchmark results with default and optimized parameters

From: isoCNV: in silico optimization of copy number variant detection from targeted or exome sequencing data

Dataset

Parameters

TP

TN

FP

FN

Total

Sensitivity

Specificity

PPV

NPV

F-score

ICR96

Default

247

27,330

60

49

27,686

0.8345

0.9978

0.8046

0.9982

0.8192

Optimized

279

27,354

36

17

27,686

0.9426

0.9987

0.8857

0.9994

0.9133

NimbleGen

Default

220

7236

43

1138

8637

0.1620

0.9941

0.8365

0.8641

0.2714

Optimized

1147

7009

271

210

8637

0.8452

0.9628

0.8089

0.9709

0.8267

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BMC Bioinformatics

ISSN: 1471-2105

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