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Table 4 Factors in the k-mer classification case

From: doepipeline: a systematic approach to optimizing multi-level and multi-step data processing workflows

Parameter Abbr. Type Min Max Default Optimized
Minimum k-mer hits MH Ordinal 1 200 a 14
Standard deviation of the relative errors of the estimate PRES Ordinal 10 18 12 17
Minimum tax-ID score threshold FILT Quantitative 0 0.05 0 0
  1. The three factors investigated in the k-mer case are described above. Min and max values define the design space. The optimized values are those that in combination produced the best outcome, as found by doepipeline. a: The KrakenUniq documentation to our knowledge does not state what the default value is