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Table 6 Accuracy of 3% OTU construction following application of the noise removal algorithms

From: Removing Noise From Pyrosequenced Amplicons

Name AmpliconNoise SLP 1% SLP 2% DeNoiser
3% OTUs Good Missed Noise Good Missed Noise Good Missed Noise Good Missed Noise
Divergent 26 0 1 26 1 162 26 1 11 24 0 3
Artificial 34 0 1 38 0 109 32 2 10 36 0 6
Even1 57 0 131 60 2 174 39 19 65 59 1 21
Even2 57 0 89 59 2 137 42 15 53 58 3 22
Even3 58 0 125 65 0 197 43 17 75 58 3 23
Uneven1 58 0 101 60 0 144 47 10 59 54 7 24
Uneven2 48 0 35 51 0 74 38 10 26 46 6 6
Uneven3 49 1 46 51 2 97 41 10 45 48 6 12
Titanium             
σ s = 0.1 66 0 8 74 0 169 67 1 18 15 53 14
σ s = 0.04 67 0 21          
  1. Reads classified as chimeric by comparison with the references were removed prior to complete linkage OTU construction at 3% sequence difference with the corresponding reference sequences. Each OTU was then classified as 'Good' if it comprised reference sequences and denoised pyrosequenced reads, 'Missed' OTUs are formed only from reference sequences, and those OTUs containing only pyrosequenced reads are designated 'Noise'. The numbers of classified OTUs observed for each data set and noise removal algorithm are shown below.