Protocol

False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6)

Percentage of individual reads falsely assigned to a virus and number of false species, summarised as median and mean (reads) or median and maximum (species) over seven negative-control libraries.

5 evaluations · 20 results

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5 recorded evaluations, 20 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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All evaluations

5 evaluations · 20 results. Different protocols are not a single leaderboard.

Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) · Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)

Sorted by False positive rate (percentage of individual reads falsely assigned; mean over seven negative-control libraries) (lower is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.

Tested configuration	False positive rate (percentage of individual reads falsely assigned; mean over seven negative-control libraries)	False positive rate (percentage of individual reads falsely assigned; median over seven negative-control libraries)	False positives (false species reported; maximum over seven negative-control libraries)	False positives (false species reported; median over seven negative-control libraries)
EsViritu v1.3.1, headline setting (Tisza et al. 2026)Evaluation	2.07e-7% (best in column)	0% (best in column)	1	0 (best in column)
Centrifuger v1.1.1-r309, headline setting (Tisza et al. 2026)Evaluation	0.000003%	0% (best in column)	2	0 (best in column)
Kraken2 v2.17.1, headline setting (Tisza et al. 2026)Evaluation	0.000186%	0.0000498%	24	6
Metabuli v1.2.0, headline setting (Tisza et al. 2026)Evaluation	0.0846%	0.0217%	71	18
Sylph v0.9.0, headline setting (Tisza et al. 2026)Evaluation	NA%	NA%	0 (best in column)	0 (best in column)

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Centrifuger v1.1.1-r309, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	2 False positives (false species reported; maximum over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Centrifuger v1.1.1-r309 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 5 (base_tool 'Centrifuger'), column 'max_n_species' (cell F5)
Configuration: Centrifuger v1.1.1-r309, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0.000003% False positive rate (percentage of individual reads falsely assigned; mean over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Centrifuger v1.1.1-r309 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 5 (base_tool 'Centrifuger'), column 'mean_fp_pct' (cell D5)
Configuration: Centrifuger v1.1.1-r309, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0% False positive rate (percentage of individual reads falsely assigned; median over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Centrifuger v1.1.1-r309 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 5 (base_tool 'Centrifuger'), column 'median_fp_pct' (cell C5)
Configuration: Centrifuger v1.1.1-r309, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0 False positives (false species reported; median over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Centrifuger v1.1.1-r309 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 5 (base_tool 'Centrifuger'), column 'median_n_species' (cell E5)
Configuration: EsViritu v1.3.1, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	1 False positives (false species reported; maximum over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EsViritu v1.3.1 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 4 (base_tool 'EsViritu'), column 'max_n_species' (cell F4)
Configuration: EsViritu v1.3.1, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	2.07e-7% False positive rate (percentage of individual reads falsely assigned; mean over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EsViritu v1.3.1 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 4 (base_tool 'EsViritu'), column 'mean_fp_pct' (cell D4)
Configuration: EsViritu v1.3.1, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0% False positive rate (percentage of individual reads falsely assigned; median over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EsViritu v1.3.1 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 4 (base_tool 'EsViritu'), column 'median_fp_pct' (cell C4)
Configuration: EsViritu v1.3.1, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0 False positives (false species reported; median over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source EsViritu v1.3.1 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 4 (base_tool 'EsViritu'), column 'median_n_species' (cell E4)
Configuration: Kraken2 v2.17.1, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	24 False positives (false species reported; maximum over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Kraken2 v2.17.1 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 6 (base_tool 'Kraken2'), column 'max_n_species' (cell F6)
Configuration: Kraken2 v2.17.1, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0.000186% False positive rate (percentage of individual reads falsely assigned; mean over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Kraken2 v2.17.1 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 6 (base_tool 'Kraken2'), column 'mean_fp_pct' (cell D6)
Configuration: Kraken2 v2.17.1, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0.0000498% False positive rate (percentage of individual reads falsely assigned; median over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Kraken2 v2.17.1 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 6 (base_tool 'Kraken2'), column 'median_fp_pct' (cell C6)
Configuration: Kraken2 v2.17.1, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	6 False positives (false species reported; median over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Kraken2 v2.17.1 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 6 (base_tool 'Kraken2'), column 'median_n_species' (cell E6)
Configuration: Metabuli v1.2.0, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	71 False positives (false species reported; maximum over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Metabuli v1.2.0 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 7 (base_tool 'Metabuli'), column 'max_n_species' (cell F7)
Configuration: Metabuli v1.2.0, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0.0846% False positive rate (percentage of individual reads falsely assigned; mean over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Metabuli v1.2.0 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 7 (base_tool 'Metabuli'), column 'mean_fp_pct' (cell D7)
Configuration: Metabuli v1.2.0, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0.0217% False positive rate (percentage of individual reads falsely assigned; median over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Metabuli v1.2.0 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 7 (base_tool 'Metabuli'), column 'median_fp_pct' (cell C7)
Configuration: Metabuli v1.2.0, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	18 False positives (false species reported; median over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Metabuli v1.2.0 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 7 (base_tool 'Metabuli'), column 'median_n_species' (cell E7)
Configuration: Sylph v0.9.0, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0 False positives (false species reported; maximum over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Sylph v0.9.0 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 8 (base_tool 'Sylph'), column 'max_n_species' (cell F8)
Configuration: Sylph v0.9.0, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	NA% False positive rate (percentage of individual reads falsely assigned; mean over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Sylph v0.9.0 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 8 (base_tool 'Sylph'), column 'mean_fp_pct' (cell D8)
Configuration: Sylph v0.9.0, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	NA% False positive rate (percentage of individual reads falsely assigned; median over seven negative-control libraries) percent · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Sylph v0.9.0 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 8 (base_tool 'Sylph'), column 'median_fp_pct' (cell C8)
Configuration: Sylph v0.9.0, headline setting (Tisza et al. 2026)	Protocol: False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) Dataset: Seven pathogen-free negative-control read libraries (Tisza et al. 2026)	0 False positives (false species reported; median over seven negative-control libraries) count · lower Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Sylph v0.9.0 on False positives in seven pathogen-free libraries (Tisza et al. 2026 Table S6) rna-pathogen-20261011-tisza2026-protocol-neg Aggregation: Not reported Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Supplemental Table S6, row 8 (base_tool 'Sylph'), column 'median_n_species' (cell E8)

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EsViritu is a sensitive and specific profiler for viral pathogen detection and genome recovery in metagenomes · Original source · bioRxiv 10.64898/2026.09.29.755457 v1, posted 2026-09-30; JATS XML
Tisza et al. 2026 Supplemental Tables S1-S25 (bioRxiv media-1.xlsx) · Original source · bioRxiv 10.64898/2026.09.29.755457 v1 supplementary file DC1 (755457_file02.xlsx)

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Technical metadata and extraction receipts

Stable ID: rna-pathogen-20261011-tisza2026-protocol-neg

areas: microbes-communities
contexts: research
protocol: Every virus assignment in a pathogen-free library is a false positive. False-positive individual-read percentage uses each library's total reads as the denominator; Sylph read percentages are unavailable.
version: bioRxiv v1
source locator: Methods 'Negative controls'; Supplemental Tables S6 and S16 captions
limitations: Seven libraries; one is human genome mock reads and one is mouse RNA; the rest are environmental.; Each tool at its selected negative-control setting.

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