TABLE 1

SPeDE accuracy compared to PPMC/UPGMA and cosine/UPGMA clusteringa

MethodNo. of
OIUs
No. of strains
retained
Reduction
rate (%)
% of redundant
references/cluster
OTU
coverage
Lowest ANI
within an OIU
No. of OIUs with
multiple OTUs
Total analysis
time (h)b
SPeDE2101609623.814994.92132
94.5% PPMC/UPGMAc33714393.45114777.33158
92% cosine/UPGMAd15215297014591.8952–3
  • a The benchmark data set consisted of 5,228 spectra, 167 strains, and 149 OTUs. PPMC/UPGMA, Pearson product moment correlation/unweighted pair group method with arithmetic mean; OIU, operational isolation unit; OTU, operational taxonomic unit (ANI > 98%).

  • b Including data import, data processing, and interpretation of results.

  • c Method as described in Ghyselinck et al. (21).

  • d Method as described in Strejcek et al. (22).