Configuration

Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)

DRAGEN column of Supplementary Table S3.

Overview

DRAGEN column of Supplementary Table S3.

Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

Evaluations and results

3 evaluations · 30 results. Different protocols are not a single leaderboard.

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	7.84 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12778', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	7.88 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12812', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	12.1 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12829', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	8.19 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12843', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	22.9 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12877', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	21.4 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12878', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	23.8 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12889', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	19.9 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12890', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	22 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12891', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025 Table S3b.1) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	23.2 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, HaplotypeCaller or DRAGEN GSVC calling stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-hc Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'b.1) Variant calling via HC or DRAGEN GSVC', row 'NA12892', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	14.1 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12778', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	12.4 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12812', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	21.7 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12829', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	15.3 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12843', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	41.1 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12877', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	38.9 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12878', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	43.2 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12889', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	36.2 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12890', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	40 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12891', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, read mapping stage (Samarakoon et al. 2025 Table S3a) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	42 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, read mapping stage (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-mapping Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'a) Read mapping', row 'NA12892', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025 Table S3c) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	21.9 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-total Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'c.) Total processing time: Read mapping & HC or DRAGEN GSVC', row 'NA12778', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025 Table S3c) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	20.3 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-total Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'c.) Total processing time: Read mapping & HC or DRAGEN GSVC', row 'NA12812', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025 Table S3c) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	33.8 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-total Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'c.) Total processing time: Read mapping & HC or DRAGEN GSVC', row 'NA12829', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025 Table S3c) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	23.4 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-total Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'c.) Total processing time: Read mapping & HC or DRAGEN GSVC', row 'NA12843', column 'DRAGEN' (PDF page text)
Configuration: Illumina DRAGEN v4.2 on DRAGEN server V2 (Samarakoon et al. 2025)	Protocol: WGS germline pipeline wall-clock, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025 Table S3c) Dataset: Ten WGS samples: six Illumina Platinum pedigree high-coverage and four 1000 Genomes phase 3 low-coverage	64 runtime minute · lower Uncertainty: Not reported by the source: Single recorded run per cell; no repeats or intervals printed Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source Illumina DRAGEN v4.2 on DRAGEN server V2, total of read mapping and HaplotypeCaller or DRAGEN GSVC (Samarakoon et al. 2025) model-execution-20261009-protocol-samarakoon2025-total Aggregation: Not reported Benchmarking accelerated next-generation sequencing analysis pipelines; Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Supplementary Table S3 'c.) Total processing time: Read mapping & HC or DRAGEN GSVC', row 'NA12877', column 'DRAGEN' (PDF page text)

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Benchmarking accelerated next-generation sequencing analysis pipelines · Original source · Bioinformatics Advances 5(1):vbaf085, published 2025-05-15; PMC12092081 full-text XML
Samarakoon et al. 2025, supplementary materials (Tables S1-S4, supplementary texts) · Original source · 'Publication-ready_Supplementary materials-20250404.pdf' inside vbaf085_supplementary_data.zip

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Stable ID: model-execution-20261009-config-samarakoon2025-dragen42-server-v2

areas: dna-genomes
contexts: clinical_research
method types: conventional_pipeline
foundation model eligible: false
reported name: DRAGEN
protocol: DRAGEN mapping, DRAGStr calibration and Germline Small Variant Caller (GSVC)
hardware: description: 2 Intel Xeon Gold 6126 (48 threads), 256 GB RAM, local NVMe SSD, CentOS 7
source locator: Supplementary Table S2; Methods 2.2-2.5; Table S3 column header
version: DRAGEN software v4.2

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