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Table 1 Comparison of AVA and VIP performance (1 sample, 67 amplicons, 12 known variants)

From: Analysing 454 amplicon resequencing experiments using the modular and database oriented Variant Identification Pipeline

 

AVA software

VIP pipeline

Total variants (unfiltered)

235

50

'Pass filter' variants

33

14

True variants called

6/12 (50%)

12/12 (100%)

False positives

27/33 (81.2%)

2/14 (14.2%)

False negatives

6/12 (50%)

0/12 (0%)

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BMC Bioinformatics

ISSN: 1471-2105

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