Configuration: BLAST (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 8.82E‐3 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Blast on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Bacillus subtilis', column 'Blast' Configuration: BLAST (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 6.07E‐6 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Blast on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Enterococcus faecalis', column 'Blast' Configuration: BLAST (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 1.07E‐3 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Blast on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Escherichia coli', column 'Blast' Configuration: BLAST (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 4.25E‐9 eta-squaredunitless · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Blast on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, rows 'η 2' and 'p‐value', column 'Blast' Configuration: BLAST (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 1.53E‐5 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Blast on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Lactobacillus fermentum', column 'Blast' Configuration: BLAST (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 8.97E‐1 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Blast on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Listeria monocytogenes', column 'Blast' Configuration: BLAST (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 8.03E‐2 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Blast on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Pseudomonas aeruginosa', column 'Blast' Configuration: BLAST (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 1.84E‐4 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Blast on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Salmonella enterica', column 'Blast' Configuration: BLAST (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 1.90E‐6 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Blast on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Staphylococcus aureus', column 'Blast' Configuration: Kraken (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 0 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Kraken on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Bacillus subtilis', column 'Kraken' Configuration: Kraken (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 5.17E‐12 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Kraken on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Enterococcus faecalis', column 'Kraken' Configuration: Kraken (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 5.17E‐10 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Kraken on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Escherichia coli', column 'Kraken' Configuration: Kraken (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 3.20E‐2 eta-squaredunitless · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Kraken on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, rows 'η 2' and 'p‐value', column 'Kraken' Configuration: Kraken (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 5.17E‐11 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Kraken on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Lactobacillus fermentum', column 'Kraken' Configuration: Kraken (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 3.40E‐1 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Kraken on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Listeria monocytogenes', column 'Kraken' Configuration: Kraken (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 3.30E‐3 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Kraken on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Pseudomonas aeruginosa', column 'Kraken' Configuration: Kraken (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 5.17E‐10 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Kraken on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Salmonella enterica', column 'Kraken' Configuration: Kraken (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 0 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Kraken on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Staphylococcus aureus', column 'Kraken' Configuration: Metaphlan (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 2.30E‐3 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Metaphlan on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Bacillus subtilis', column 'Metaphlan' Configuration: Metaphlan (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 0 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Metaphlan on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Enterococcus faecalis', column 'Metaphlan' Configuration: Metaphlan (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 0 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Metaphlan on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Escherichia coli', column 'Metaphlan' Configuration: Metaphlan (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 3.00E‐3 eta-squaredunitless · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Metaphlan on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, rows 'η 2' and 'p‐value', column 'Metaphlan' Configuration: Metaphlan (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 0 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Metaphlan on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Lactobacillus fermentum', column 'Metaphlan' Configuration: Metaphlan (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 7.23E‐1 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Metaphlan on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Listeria monocytogenes', column 'Metaphlan' Configuration: Metaphlan (Song et al. 2025) Protocol: Relative abundance of each species in ZymoBIOMICS Standard II against its theoretical distribution (Song et al. 2025 Table 1) Dataset: ZymoBIOMICS Microbial Community Standard II positive control (Song et al. 2025) 3.00E‐2 proportionfraction · unknown
Uncertainty: Not reported by the source
Coverage: Not reported scored / Not reported eligible
Independent external evaluation · Source checked Evidence concern: excluded from comparisons Table 1 prints Kraken relative abundances of 5.17E‐10 (Salmonella enterica and Escherichia coli), 5.17E‐11 (Lactobacillus fermentum) and 5.17E‐12 (Enterococcus faecalis): one mantissa over three orders of magnitude. As read fractions these need at least about 2 billion to 190 billion reads per assigned read, far above the study's libraries (patient samples average 33.5 M reads after QC; the control library size is not given). The values are probably a computation or formatting artefact, so the Kraken column of Table 1 and its eta squared (3.20E‐2) should not be compared. Values are kept as printed. Table 2 values are not affected by this finding.Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, column 'Kraken', rows 'Salmonella enterica' to 'Enterococcus faecalis' and 'η 2'; Methods 'Sample Collection and Processing'
Methods, coverage and source Metaphlan on ZymoBIOMICS Standard II (Song et al. 2025)
dna-pathogen-20261009-protocol-song2025-zymo-abundance
Aggregation: Not reported
Diagnostic Accuracy of Shotgun Metagenomics for Bloodstream Infections Is Influenced by Bioinformatics Workflow Selection · Table 1, row 'Pseudomonas aeruginosa', column 'Metaphlan'