| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 8.2 peak-memory gigabyte · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcekraken Myco on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken Myco', column 'Memory (GB)†' |
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| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 6,755 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken Myco', column 'Rate (reads/s)*' |
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| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.977 recall fraction · higher Uncertainty: 95% CI 0.9764 to 0.9782. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcekraken Myco on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken Myco', column 'Sensitivity (95% CI)' |
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| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken Myco', column 'Specificity (95% CI)' |
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| Configuration: kraken Myco (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.977 youden-index fraction · higher Uncertainty: 95% CI 0.9764 to 0.9782. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourcekraken Myco on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken Myco', column 'Youden’s index (95% CI)' |
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| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 7.7 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken standard-8', column 'Memory (GB)†' |
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| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 14,828 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken standard-8', column 'Rate (reads/s)*' |
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| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.448 recall fraction · higher Uncertainty: 95% CI 0.4449 to 0.451. 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken standard-8', column 'Sensitivity (95% CI)' |
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| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken standard-8', column 'Specificity (95% CI)' |
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| Configuration: kraken standard-8 (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.448 youden-index fraction · higher Uncertainty: 95% CI 0.4448 to 0.451. 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken standard-8', column 'Youden’s index (95% CI)' |
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| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 67 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken standard', column 'Memory (GB)†' |
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| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 6740 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken standard', column 'Rate (reads/s)*' |
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| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.711 recall fraction · higher Uncertainty: 95% CI 0.7086 to 0.7142. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken standard', column 'Sensitivity (95% CI)' |
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| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'kraken standard', column 'Specificity (95% CI)' |
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| Configuration: kraken standard (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.711 youden-index fraction · higher Uncertainty: 95% CI 0.7086 to 0.7142. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourcekraken standard on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, 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 Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 13.8 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 Clockwork', column 'Memory (GB)†' |
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| Configuration: minimap2 Clockwork (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 1,225 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 Clockwork', column 'Rate (reads/s)*' |
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| Configuration: minimap2 Clockwork (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.981 recall fraction · higher Uncertainty: 95% CI 0.9799 to 0.9816. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 Clockwork on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 Clockwork', column 'Sensitivity (95% CI)' |
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| Configuration: minimap2 Clockwork (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 1 specificity fraction · higher Uncertainty: 95% CI 0.9995 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 Clockwork', column 'Specificity (95% CI)' |
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| Configuration: minimap2 Clockwork (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.98 youden-index fraction · higher Uncertainty: 95% CI 0.9794 to 0.9812. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 Clockwork on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 Clockwork', column 'Youden’s index (95% CI)' |
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| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 2.5 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 MTB', column 'Memory (GB)†' |
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| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 1,892 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 Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 MTB', column 'Rate (reads/s)*' |
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| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.945 recall fraction · higher Uncertainty: 95% CI 0.9436 to 0.9464. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 MTB on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 MTB', column 'Sensitivity (95% CI)' |
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| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.982 specificity fraction · higher Uncertainty: 95% CI 0.9816 to 0.9821. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 MTB on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 MTB', column 'Specificity (95% CI)' |
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| Configuration: minimap2 MTB (Hall and Coin 2024) | Protocol: M. tuberculosis read classification, real Nanopore (Hall and Coin 2024 Table 6)
Dataset: Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) | 0.927 youden-index fraction · higher Uncertainty: 95% CI 0.9252 to 0.9285. Wilson score interval (table footnote) Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceminimap2 MTB on Artificial real Nanopore metagenome, non-human reads (Hall and Coin 2024) dna-pathogen-20261009-protocol-hall2024-mtb-reads-real-nanopore Aggregation: Not reported Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data · Table 6, row 'minimap2 MTB', column 'Youden’s index (95% CI)' |
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