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Table 1 CPU time (in minutes) required to analyze a simulated fungal metatranscriptome (mtt, ~ 9M PE reads) and a fungal metagenome (mtg, ~ 6.7M PE reads)

From: CCMetagen: comprehensive and accurate identification of eukaryotes and prokaryotes in metagenomic data

 

nt

RefSeq-bf

RefSeq-f-Partial

mtt

mtg

mtt

mtg

mtt

mtg

Kraken2

10.92

7.05

5.29

3.98

4.48

3.50

CCMetagen*

17.24

13.54

85.74

67.00

69.29

20.58

Centrifuge

40.11

27.54

23.70

19.41

16.67

16.10

KrakenUniq

74.11

74.94

43.33

40.85

29.65

21.04

  1. *The CCMetagen time was calculated as the sum of the CPU time used by KMA and CCMetagen
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Genome Biology

ISSN: 1474-760X

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