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Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)

Kraken2 on Trimmomatic-trimmed reads, all trimmed reads (human reads included).

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Kraken2 on Trimmomatic-trimmed reads, all trimmed reads (human reads included).

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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-config-carbo2022-kraken2-incl-human

areas: microbes-communities
contexts: clinical_research
method types: conventional_pipeline
reported name: Kraken2
source locator: Section 2.5; 2.6.4; Table 2 column 'Kraken 2'; Section 2.3 (pre-processing)
foundation model eligible: false
version: 2.0.8-beta
parameters: Viral NCBI RefSeq genomes downloaded 2020-12-27. Pre-processing: Trimmomatic v0.36 trimming, adapter clipping and low-complexity filtering; all trimmed reads (human reads included).

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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)	0.979 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell D7, row 'Kraken2', column 'AUC'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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)	38.5 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell J7, row 'Kraken2', column 'LR intercept'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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)	48.2% 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell K7, row 'Kraken2', column 'LR r2, %'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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)	-2.67 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell I7, row 'Kraken2', column 'LR slope'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell H7, row 'Kraken2', column 'NPV (ROC)'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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)	0.561 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell G7, row 'Kraken2', column 'PPV (ROC)'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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)	0.0478 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell C7, row 'Kraken2', column 'Informedness'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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)	0.958 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell E7, row 'Kraken2', column 'SN (ROC)'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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)	0.977 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell F7, row 'Kraken2', column 'SL (ROC)'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell L7, row 'Kraken2', column 'Taxa'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, family level, read-count cut-off 0 (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 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 Kraken2, all trimmed reads (human reads included): family level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-family-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Family', block 'incl. human reads', cell M7, row 'Kraken2', column 'Taxa with reads >0'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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)	0.969 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell D6, row 'Kraken2', column 'AUC'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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)	36.2 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell J6, row 'Kraken2', column 'LR intercept'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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)	35.3% 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell K6, row 'Kraken2', column 'LR r2, %'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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)	-2.16 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell I6, row 'Kraken2', column 'LR slope'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell H6, row 'Kraken2', column 'NPV (ROC)'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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)	0.287 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell G6, row 'Kraken2', column 'PPV (ROC)'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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)	0.0851 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell C6, row 'Kraken2', column 'Informedness'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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)	0.958 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell E6, row 'Kraken2', column 'SN (ROC)'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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)	0.926 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell F6, row 'Kraken2', column 'SL (ROC)'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell L6, row 'Kraken2', column 'Taxa'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, genus level, read-count cut-off 0 (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 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 Kraken2, all trimmed reads (human reads included): genus level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-genus-cutoff-0 Aggregation: Not reported Carbo et al. medRxiv preprint v1, Supplementary Tables 1 and 2 · Supplementary Table 1 sheet 'Suppl table 1-Genus', block 'incl. human reads', cell M6, row 'Kraken2', column 'Taxa with reads >0'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 0 (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)	0.925 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 Kraken2, all trimmed reads (human reads included): species level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-0 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 D11, row 'Kraken2', column 'AUC'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 0 (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)	36.9 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 Kraken2, all trimmed reads (human reads included): species level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-0 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 J11, row 'Kraken2', column 'LR intercept'
Configuration: Kraken2, all trimmed reads (human reads included) (Carbo et al. 2022)	Protocol: Respiratory virus detection against PCR, species level, read-count cut-off 0 (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)	38.9% 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 Kraken2, all trimmed reads (human reads included): species level, read-count cut-off 0 (Carbo et al. 2022) rna-pathogen-20261009-protocol-carbo2022-species-cutoff-0 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 K11, row 'Kraken2', column 'LR r2, %'