Table 1

Abilities of clustering algorithms to group reads from the same input sequence together into the same OTU

ResultaNo. predicted
Distribution basedDe novoReference based
CompleteParallelUSEARCHAvgbOpenClosed
TP8.57E88.45E89.46E88.60E86.61E86.68E8
FP6.86E75.08E77.36E83.92E81.32E41.10E4
TN1.48E111.48E111.48E111.48E111.48E111.37E11
FN2.02E82.14E81.13E81.99E83.98E81.15E10
  • a TP, a pair of sequences in the same OTU with the same sequence of origin; FP, a pair of sequences in different OTUs with the same sequence of origin; TN, a pair of sequences in different OTUs with different sequences of origin; FN, a pair of sequences in different OTUs with the same sequence of origin or if either of a pair of reads was not assigned to an OTU (only affects closed-reference clustering).

  • b Avg, average-linkage hierarchical clustering.