Published pipeline execution benchmark; transcribed, not reproduced.
1 evaluation · 5 results. Different protocols are not a single leaderboard.
Protocol: Germline FASTQ-to-VCF runtime by read depth, Parabricks v4.3.0 on V100 and A100 GPUs versus the CPU GATK equivalent (Marangoni et al. 2026 Table S1) · Dataset: Human WGS paired-end data at 30x, 40x, 50x, 60x and 100x average depth (Marangoni et al. 2026 Table S1)
Sorted by Runtime (Germline FASTQ to VCF; human WGS at 100x average depth) (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 | Runtime (Germline FASTQ to VCF; human WGS at 100x average depth) | Runtime (Germline FASTQ to VCF; human WGS at 30x average depth) | Runtime (Germline FASTQ to VCF; human WGS at 40x average depth) | Runtime (Germline FASTQ to VCF; human WGS at 50x average depth) | Runtime (Germline FASTQ to VCF; human WGS at 60x average depth) |
|---|---|---|---|---|---|
| Parabricks germline v4.3.0 (GeNePi PB_germ) on 4 A100 GPUs (Marangoni et al. 2026)Evaluation | 2h 06m | 30m | 42m | 1h 00m | 1h 12m |
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Source checking is not independent reproduction. Release 2026-10-22-1b7cf027e4f6.
0 of 4 readiness checks met. These checks assess whether the evidence supports a reproducible investigation; a source-checked score alone does not meet them.
Release 2026-10-22-1b7cf027e4f6 · Evidence verified: Not verified
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One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
36 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Comparison: adaptation Not reported Context-only references | GeNePi: a graphics processing unit enhanced next-generation bioinformatics pipeline for whole-genome sequencing analysis Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Briefings in Bioinformatics 27(1), published 2026-01-25; PMC12832024 full-text XML | missing or unspecified No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: adaptation Not reported Context-only references | GeNePi: Supplementary Information Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: genepi_supplinfo_rev_bbag001.pdf from the Europe PMC supplementary files of PMC12832024 | missing or unspecified No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: genepi_supplinfo_rev_bbag001.pdf |
| Comparison: aggregation One value per depth Context-only references | GeNePi: a graphics processing unit enhanced next-generation bioinformatics pipeline for whole-genome sequencing analysis Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Briefings in Bioinformatics 27(1), published 2026-01-25; PMC12832024 full-text XML | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: aggregation One value per depth Context-only references | GeNePi: Supplementary Information Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: genepi_supplinfo_rev_bbag001.pdf from the Europe PMC supplementary files of PMC12832024 | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: genepi_supplinfo_rev_bbag001.pdf |
| Comparison: budget Number of runs not stated; no fixed hardware budget, hardware is part of each configuration Context-only references | GeNePi: a graphics processing unit enhanced next-generation bioinformatics pipeline for whole-genome sequencing analysis Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Briefings in Bioinformatics 27(1), published 2026-01-25; PMC12832024 full-text XML | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: budget Number of runs not stated; no fixed hardware budget, hardware is part of each configuration Context-only references | GeNePi: Supplementary Information Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: genepi_supplinfo_rev_bbag001.pdf from the Europe PMC supplementary files of PMC12832024 | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: genepi_supplinfo_rev_bbag001.pdf |
| Comparison: dataset version Not reported Context-only references | GeNePi: a graphics processing unit enhanced next-generation bioinformatics pipeline for whole-genome sequencing analysis Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Briefings in Bioinformatics 27(1), published 2026-01-25; PMC12832024 full-text XML | missing or unspecified No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: dataset version Not reported Context-only references | GeNePi: Supplementary Information Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: genepi_supplinfo_rev_bbag001.pdf from the Europe PMC supplementary files of PMC12832024 | missing or unspecified No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: genepi_supplinfo_rev_bbag001.pdf |
| Comparison: inputs Paired-end FASTQ Context-only references | GeNePi: a graphics processing unit enhanced next-generation bioinformatics pipeline for whole-genome sequencing analysis Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Briefings in Bioinformatics 27(1), published 2026-01-25; PMC12832024 full-text XML | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: inputs Paired-end FASTQ Context-only references | GeNePi: Supplementary Information Supplementary Table S1 column 'GPU-4xA100' Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: genepi_supplinfo_rev_bbag001.pdf from the Europe PMC supplementary files of PMC12832024 | not individually reviewed No individual claim review recorded author reported Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record Archive member: genepi_supplinfo_rev_bbag001.pdf |
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
Stable ID: model-execution-20261011-eval-marangoni2026-parabricks-4-3-0-4xa100