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) |
|---|---|---|---|---|---|
| CPU-equivalent GATK germline pipeline on a CPU node (Marangoni et al. 2026)Evaluation | 60h | 17h | 24h | 30h | 35h |
Applied filters: All linked evaluations
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
Exact outcomes, predictions, identifiers and evaluator are connected.
Missing or unresolved evidence
Verified: Not verified
Replay evidence includes annotations and an assessment of dependence. Unknown independence permits descriptive analysis only.
Missing or unresolved evidence
Verified: Not verified
A pinned recipe describes the inputs, environment and resource requirements.
Missing or unresolved evidence
Verified: Not verified
Separate data and exposure records support an independent test.
Missing or unresolved evidence
Verified: Not verified
Readiness describes the evidence in this release. Availability on your computer is checked separately when an investigation runs. Existing data exposure can prevent independent validation even when files are available.
No verified artifact manifest is connected to this record yet. The gaps above identify what is needed before analysis can begin.
Metadata review: source checked. Unreported conditions prevent automatic comparisons.
No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.
Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
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 'CPU' 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 independent paper 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 'CPU' 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 independent paper 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 'CPU' 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 independent paper 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 'CPU' 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 independent paper 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 'CPU' 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 independent paper 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 'CPU' 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 independent paper 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 'CPU' 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 independent paper 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 'CPU' 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 independent paper 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 'CPU' 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 independent paper 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 'CPU' 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 independent paper 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-gatk-cpu