Published RNA metagenomic pathogen-detection comparison; transcribed, not reproduced.
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1 evaluation · 17 results. Different protocols are not a single leaderboard.
Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 11 true-positive-count count · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell R74, row 'Taxonomer', column 'Number of samples correctly positive ... out of 13 samples*' |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 286 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell C74, row 'Taxonomer' read count, column sample 1 (HHV-6(A)) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 54800 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell D74, row 'Taxonomer' read count, column sample 2 (HHV-6(B)) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 424000 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell E74, row 'Taxonomer' read count, column sample 3 (Enterovirus) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 51300 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell F74, row 'Taxonomer' read count, column sample 4 (EBV) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 166000 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell G74, row 'Taxonomer' read count, column sample 5 (Mumps) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 173000 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell H74, row 'Taxonomer' read count, column sample 6 (CoV-OC43) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 181 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell I74, row 'Taxonomer' read count, column sample 7 (Astrovirus VA1) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 1070 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell J74, row 'Taxonomer' read count, column sample 8 (Inf-A) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 66 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell K74, row 'Taxonomer' read count, column sample 9 (PIV-3) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 850 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell L74, row 'Taxonomer' read count, column sample 10 (CoV-NL63) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 4510 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell M74, row 'Taxonomer' read count, column sample 11 (CoV-NL63) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 0 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell N74, row 'Taxonomer' read count, column sample 11 (CoV-HKU-1) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 1380 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell O74, row 'Taxonomer' read count, column sample 12 (CoV-HKU-1) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 752 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell P74, row 'Taxonomer' read count, column sample 13 (Adeno-virus) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 0 count count · unknown Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell Q74, row 'Taxonomer' read count, column sample 13 (EBV) |
| Configuration: Taxonomer as run by an ENNGS laboratory (de Vries et al. 2021) | Protocol: Detection of RT-PCR-positive viruses per sample, with assigned read counts (de Vries et al. 2021 Supplementary Table 2) Dataset: ENNGS benchmark: 13 clinical metagenomic datasets with RT-PCR results (de Vries et al. 2021) | 84.6% recall percent · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceTaxonomer: sample-level detection (ENNGS) rna-pathogen-20261009-protocol-devries2021-sample-level Aggregation: Not reported de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 · Supplementary Table 2, cell S74, row 'Taxonomer', column 'Overall sensitivity [%], sample level' |
Source checking is not independent reproduction. Release 2026-10-09-8cc1db47c7f9.
rna-pathogen-20261009-protocol-devries2021-sample-level
Metadata review: source checked. Unreported conditions prevent automatic comparisons.
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One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
38 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.comparison.adaptation Each laboratory's own database and reporting criteria Context-only references | Benchmark of thirteen bioinformatic pipelines for metagenomic virus diagnostics using datasets from clinical samples Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1 (2021-05-08), JATS XML; published as J Clin Virol 141:104908 (doi:10.1016/j.jcv.2021.104908) | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.adaptation Each laboratory's own database and reporting criteria Context-only references | de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1, supplementary file media-1.xlsx (sheets SuppS2, SuppS3, SuppS4) | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.aggregation All samples Context-only references | Benchmark of thirteen bioinformatic pipelines for metagenomic virus diagnostics using datasets from clinical samples Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1 (2021-05-08), JATS XML; published as J Clin Virol 141:104908 (doi:10.1016/j.jcv.2021.104908) | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.aggregation All samples Context-only references | de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1, supplementary file media-1.xlsx (sheets SuppS2, SuppS3, SuppS4) | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.budget Not reported Context-only references | Benchmark of thirteen bioinformatic pipelines for metagenomic virus diagnostics using datasets from clinical samples Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1 (2021-05-08), JATS XML; published as J Clin Virol 141:104908 (doi:10.1016/j.jcv.2021.104908) | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.budget Not reported Context-only references | de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1, supplementary file media-1.xlsx (sheets SuppS2, SuppS3, SuppS4) | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.dataset_version ENNGS 13 shared datasets Context-only references | Benchmark of thirteen bioinformatic pipelines for metagenomic virus diagnostics using datasets from clinical samples Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1 (2021-05-08), JATS XML; published as J Clin Virol 141:104908 (doi:10.1016/j.jcv.2021.104908) | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.dataset_version ENNGS 13 shared datasets Context-only references | de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1, supplementary file media-1.xlsx (sheets SuppS2, SuppS3, SuppS4) | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.inputs Raw untrimmed FASTQ, human reads removed before sharing Context-only references | Benchmark of thirteen bioinformatic pipelines for metagenomic virus diagnostics using datasets from clinical samples Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1 (2021-05-08), JATS XML; published as J Clin Virol 141:104908 (doi:10.1016/j.jcv.2021.104908) | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.comparison.inputs Raw untrimmed FASTQ, human reads removed before sharing Context-only references | de Vries et al. medRxiv preprint v1, Supplementary Tables 2-4 Supplementary Table 2 rows 74-78 Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: medRxiv 2021.05.04.21256618 version 1, supplementary file media-1.xlsx (sheets SuppS2, SuppS3, SuppS4) | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Release 2026-10-09-8cc1db47c7f9 · Record review: source checked
Stable ID: rna-pathogen-20261009-eval-devries2021-sample-taxonomer