Protocol

Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1)

Per-classifier detection of 13 PCR-tested respiratory viruses in 88 nasal washings, scored against 1144 PCR results.

Overview

Per-classifier detection of 13 PCR-tested respiratory viruses in 88 nasal washings, scored against 1144 PCR results.

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15 recorded evaluations, 165 metric rows. A comparison chart has not yet been validated for these results. The table retains the individual findings and their sources.

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15 evaluations · 165 results. Different protocols are not a single leaderboard.

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Sources and history

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Performance of Five Metagenomic Classifiers for Virus Pathogen Detection Using Respiratory Samples from a Clinical Cohort · Original source · Pathogens 11(3):340, published 2022-03-11; PMC8953373 full-text XML
Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Original source · medRxiv 2022.01.21.22269647 version 1 (2022-01-21), supplementary file media-1.xlsx

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Technical metadata and extraction receipts

Stable ID: rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10

areas: microbes-communities
contexts: clinical_research
protocol: ROC curves over the read count used as the cut-off for a positive result (1000 steps from one read to the maximum per PCR target and sample); sensitivity (SN), selectivity (SL, specificity), PPV and NPV at the ROC-selected point, AUC, and the ROC distance to the error-free point, against 24 positive and 1120 negative PCR results; linear regression of assigned read counts against PCR Ct values. Assignment at species level; the supplement labels this block 'read-count cut-off 10' without further definition.
version: Supplementary Table 1, Species level, read-count cut-off 10
denominator: 1144
source locator: Section 2.7; Supplementary Table 1 sheet notes (rows 1-3)
limitations: Single cohort; 24 PCR-positive results.; The meaning of the 0 and 10 read cut-offs alongside the ROC-selected threshold is not defined beyond the sheet note.; Out-of-panel viruses are not scored.
missing metadata: uncertainty: reason: unreported

Related records

Suggest a correction

Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.935 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell S23, row 'Centrifuge', column 'AUC'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	32.5 regression-intercept unitless · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell Y23, row 'Centrifuge', column 'LR intercept'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	14.2% pearson-r-squared percent · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell Z23, row 'Centrifuge', column 'LR r2, %'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	-1.3 regression-slope unitless · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell X23, row 'Centrifuge', column 'LR slope'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.562 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell S31, row 'Centrifuge', column 'AUC'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	32.5 regression-intercept unitless · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell Y31, row 'Centrifuge', column 'LR intercept'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	10.6% pearson-r-squared percent · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell Z31, row 'Centrifuge', column 'LR r2, %'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	-5.21 regression-slope unitless · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell X31, row 'Centrifuge', column 'LR slope'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.973 negative-predictive-value fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell W31, row 'Centrifuge', column 'NPV (ROC)'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.75 precision fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell V31, row 'Centrifuge', column 'PPV (ROC)'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.875 roc-distance unitless · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell R31, row 'Centrifuge', column 'Informedness'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.125 recall fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell T31, row 'Centrifuge', column 'SN (ROC)'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.999 specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell U31, row 'Centrifuge', column 'SL (ROC)'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	17 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell AA31, row 'Centrifuge', column 'Taxa'
Configuration: Centrifuge, human reads removed, and assigned read counts normalised by target genome length (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	17 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed, and assigned read counts normalised by target genome length: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads and normalized', cell AB31, row 'Centrifuge', column 'Taxa with reads >10'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.996 negative-predictive-value fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell W23, row 'Centrifuge', column 'NPV (ROC)'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.875 precision fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell V23, row 'Centrifuge', column 'PPV (ROC)'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.125 roc-distance unitless · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell R23, row 'Centrifuge', column 'Informedness'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.875 recall fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell T23, row 'Centrifuge', column 'SN (ROC)'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.996 specificity fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell U23, row 'Centrifuge', column 'SL (ROC)'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	17 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell AA23, row 'Centrifuge', column 'Taxa'
Configuration: Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	17 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, human reads removed (Bowtie2 to GRCh38) before classification: species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'excl. human reads', cell AB23, row 'Centrifuge', column 'Taxa with reads >10'
Configuration: Centrifuge, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	0.934 auroc unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, all trimmed reads (human reads included): species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'incl. human reads', cell S10, row 'Centrifuge', column 'AUC'
Configuration: Centrifuge, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	32.5 regression-intercept unitless · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, all trimmed reads (human reads included): species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'incl. human reads', cell Y10, row 'Centrifuge', column 'LR intercept'
Configuration: Centrifuge, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 10 (Carbo et al. 2022 Supplementary Table 1) Dataset: Nasal washings from COPD patients with respiratory complaints, metagenomic sequencing and 13-target respiratory PCR panel (Carbo et al. 2022)	14.2% pearson-r-squared percent · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Centrifuge, all trimmed reads (human reads included): species level, read-count cut-off 10 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-10 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Species', block 'incl. human reads', cell Z10, row 'Centrifuge', column 'LR r2, %'