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Table 2 Computational efficiency

From: LotuS: an efficient and user-friendly OTU processing pipeline

Dataset Time (s) Lotus_RDP Lotus_BLAST QIIME DN QIIME Ref mothur
2 × 454 Demultiplexing/quality filtering 37 37 160 160 235
2 × 454 Full run 177 7,317 4,325 17,081 39,660
2 × MiSeq Demultiplexing/quality filtering 820 820 3,495 3,495 *
2 × MiSeq Full run 8,856 23,761 69,696 56,916 *
  1. Execution times for the five pipelines in seconds performed on the same computer. The output of “full runs” is OTU abundance, higher taxonomic level abundance and a phylogenetic tree of OTUs. The table is further separated into the execution times on our 454 mice faeces test set (2 × 454) and the two human faeces MiSeq test sets (2 × MiSeq). Asterisks denote that mothur was excluded, due to an unknown error (see Additional file 1).