| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 8.3 peak-memory gigabyte · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcekraken Myco on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken Myco', column 'Memory (GB)†' |
|---|
| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 398,597 inference-throughput sample-per-second · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcekraken Myco on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken Myco', column 'Rate (reads/s)*' |
|---|
| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.972 recall fraction · higher Uncertainty: 95% CI 0.9714 to 0.9716. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcekraken Myco on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken Myco', column 'Sensitivity (95% CI)' |
|---|
| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 1 specificity fraction · higher Uncertainty: 95% CI 1.0 to 1.0. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcekraken Myco on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken Myco', column 'Specificity (95% CI)' |
|---|
| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.972 youden-index fraction · higher Uncertainty: 95% CI 0.9714 to 0.9716. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcekraken Myco on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken Myco', column 'Youden’s index (95% CI)' |
|---|
| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 7.8 peak-memory gigabyte · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard-8 on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard-8', column 'Memory (GB)†' |
|---|
| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 647,608 inference-throughput sample-per-second · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard-8 on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard-8', column 'Rate (reads/s)*' |
|---|
| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.0146 recall fraction · higher Uncertainty: 95% CI 0.0146 to 0.0147. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard-8 on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard-8', column 'Sensitivity (95% CI)' |
|---|
| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 1 specificity fraction · higher Uncertainty: 95% CI 1.0 to 1.0. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard-8 on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard-8', column 'Specificity (95% CI)' |
|---|
| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.0146 youden-index fraction · higher Uncertainty: 95% CI 0.0146 to 0.0147. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard-8 on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard-8', column 'Youden’s index (95% CI)' |
|---|
| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 67.2 peak-memory gigabyte · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard', column 'Memory (GB)†' |
|---|
| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 239,420 inference-throughput sample-per-second · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard', column 'Rate (reads/s)*' |
|---|
| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.0731 recall fraction · higher Uncertainty: 95% CI 0.073 to 0.0732. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard', column 'Sensitivity (95% CI)' |
|---|
| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 1 specificity fraction · higher Uncertainty: 95% CI 1.0 to 1.0. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard', column 'Specificity (95% CI)' |
|---|
| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.0731 youden-index fraction · higher Uncertainty: 95% CI 0.073 to 0.0732. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'kraken standard', column 'Youden’s index (95% CI)' |
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| Configuration: minimap2 Clockwork (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 22.2 peak-memory gigabyte · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 Clockwork on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 Clockwork', column 'Memory (GB)†' |
|---|
| Configuration: minimap2 Clockwork (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 56,485 inference-throughput sample-per-second · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 Clockwork on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 Clockwork', column 'Rate (reads/s)*' |
|---|
| Configuration: minimap2 Clockwork (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.996 recall fraction · higher Uncertainty: 95% CI 0.996 to 0.9961. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 Clockwork on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 Clockwork', column 'Sensitivity (95% CI)' |
|---|
| Configuration: minimap2 Clockwork (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 1 specificity fraction · higher Uncertainty: 95% CI 0.9996 to 0.9996. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 Clockwork on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 Clockwork', column 'Specificity (95% CI)' |
|---|
| Configuration: minimap2 Clockwork (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.996 youden-index fraction · higher Uncertainty: 95% CI 0.9956 to 0.9956. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 Clockwork on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 Clockwork', column 'Youden’s index (95% CI)' |
|---|
| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 2 peak-memory gigabyte · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 MTB on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 MTB', column 'Memory (GB)†' |
|---|
| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 82,194 inference-throughput sample-per-second · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 MTB on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 MTB', column 'Rate (reads/s)*' |
|---|
| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.942 recall fraction · higher Uncertainty: 95% CI 0.9415 to 0.9417. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 MTB on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 MTB', column 'Sensitivity (95% CI)' |
|---|
| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.988 specificity fraction · higher Uncertainty: 95% CI 0.9883 to 0.9884. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 MTB on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 MTB', column 'Specificity (95% CI)' |
|---|
| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Illumina (Hall and Coin 2024 Table 8)
Dataset: Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) | 0.93 youden-index fraction · higher Uncertainty: 95% CI 0.9298 to 0.9301. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 MTB on Artificial real Illumina metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-illumina Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 8, row 'minimap2 MTB', column 'Youden’s index (95% CI)' |
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