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Table 6 Quantification results for the Kal samples using the reference dataset AFS20 and the average result for AFS31RS90

From: A big data approach to metagenomics for all-food-sequencing

Dataset

Classifier

Cattle

Sheep

Pig

Horse

W.Buf.

Goat

Σ FP

Σ Dev

Kal_A

Expected

1.00%

9.0%

35.0%

55.0%

0.00%

0.00%

  
 

AFS-MC

1.25%

11.0%

30.5%

54.1%

0.01%

0.29%

0.42%

8.13%

 

MCSpark

1.27%

11.1%

30.3%

54.1%

0.01%

0.29%

0.45%

8.42%

 

CLARK

1.29%

9.1%

31.1%

54.0%

0.09%

0.89%

1.15%

6.43%

 

Kraken2

1.23%

8.7%

30.9%

53.9%

0.08%

0.96%

1.31%

6.99%

 

K2+Brack

1.43%

10.3%

31.0%

54.0%

0.10%

1.12%

1.53%

8.24%

Kal_B

Expected

9.0%

1.00%

55.0%

35.0%

0.00%

0.00%

  
 

AFS-MC

10.5%

1.42%

49.3%

35.6%

0.03%

0.06%

0.27%

8.43%

 

MCSpark

10.6%

1.42%

49.1%

35.7%

0.03%

0.06%

0.30%

8.92%

 

CLARK

10.3%

1.26%

50.0%

35.8%

0.17%

0.18%

0.56%

7.85%

 

Kraken2

10.0%

1.21%

49.6%

35.7%

0.20%

0.20%

1.03%

8.40%

 

K2+Brack

11.0%

1.40%

35.8%

49.7%

0.22%

0.23%

1.09%

9.60%

Kal_C

Expected

25.0%

25.0%

25.0%

25.0%

0.00%

0.00%

  
 

AFS-MC

23.3%

29.6%

19.2%

23.0%

0.06%

0.73%

1.08%

15.28%

 

MCSpark

23.5%

29.6%

19.0%

22.9%

0.06%

0.73%

1.18%

15.32%

 

CLARK

23.4%

25.6%

19.4%

23.2%

0.45%

2.56%

3.38%

12.98%

 

Kraken2

22.7%

24.7%

19.4%

23.1%

0.49%

2.69%

3.48%

13.65%

 

K2+Brack

24.8%

27.8%

19.4%

23.2%

0.54%

3.02%

3.89%

14.35%

Kal_D

Expected

35.0%

55.0%

9.00%

1.00%

0.00%

0.00%

  
 

AFS-MC

32.9%

51.5%

7.14%

1.14%

0.09%

1.50%

2.07%

9.62%

 

MCSpark

33.2%

51.2%

7.03%

1.13%

0.09%

1.49%

2.23%

9.91%

 

CLARK

32.8%

43.1%

7.31%

1.16%

0.72%

4.40%

5.69%

21.61%

 

Kraken2

31.6%

41.3%

7.26%

1.16%

0.79%

4.62%

5.77%

24.75%

 

K2+Brack

35.8%

48.4%

7.28%

1.16%

0.89%

5.40%

6.70%

15.96%

Kal_E

Expected

55.0%

35.0%

1.00%

9.00%

0.00%

0.00%

  
 

AFS-MC

50.4%

33.7%

0.99%

7.80%

0.12%

0.96%

1.52%

8.55%

 

MCSpark

50.7%

33.4%

0.97%

7.73%

0.12%

0.95%

1.66%

8.82%

 

CLARK

50.7%

28.7%

1.02%

7.81%

0.84%

3.07%

4.43%

16.26%

 

Kraken2

49.2%

27.6%

1.00%

7.80%

0.99%

3.28%

4.58%

18.96%

 

K2+Brack

54.1%

31.4%

1.00%

7.81%

1.10%

3.71%

5.15%

10.86%

KAL_D

Expected

35.0%

55.0%

9.00%

1.00%

0.00%

0.00%

  
 

AFS-MC

30.3%

49.6%

7.27%

1.16%

0.08%

1.25%

1.38%

13.36%

 

MCSpark

30.4%

49.5%

7.25%

1.16%

0.08%

1.26%

1.36%

13.36%

 

CLARK

30.8%

43.3%

7.51%

1.20%

0.86%

4.57%

6.30%

23.85%

 

Kraken2

29.6%

41.3%

7.47%

1.19%

0.95%

4.98%

7.03%

27.86%

 

K2+Brack

33.5%

48.7%

7.58%

1.19%

1.08%

5.84%

8.07%

17.44%

Average

AFS-MC

    

0.07%

0.80%

1.12%

10.56%

 

MCSpark

    

0.07%

0.80%

1.20%

10.79%

 

CLARK

    

0.51%

2.61%

3.59%

14.83%

 

Kraken2

    

0.58%

2.79%

3.87%

16.77%

 

K2+Brack

    

0.66%

3.22%

4.41%

12.74%

AFS31RS90

AFS-MC

      

1.84%

13.38%

Average

MCSpark

      

1.84%

13.63%

  1. AFS-MC: AFS-MetaCache, MC-Spark: MetaCacheSpark, K2+Brack: Kraken2 with subsequent Bracken, W.Buf: Water Buffalo, Σ FP: Sum of all false positive read classifications, Σ Dev: Sum of absolute deviations to the given meat composition (best results for each dataset in bold)