Configuration

CNVnator comparator (Behera et al. Table S4)

CNVnator as run in the cited comparison.

Overview

CNVnator as run in the cited comparison.

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

Evaluations and results

5 evaluations · 15 results. Different protocols are not a single leaderboard.

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Tested model or methodProtocolDatasetEvaluation setupMetricEvidence origin

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion 1–5kb F-score Dataset: HG002 35× WGS, GIAB SV v0.6 deletion subset	0.391 f1-score fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [1,000-5,000) amp-protocol-hg002-cnv-1-5kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', L6; row [1,000-5,000); column CNVnator F-score
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion 1–5kb F-score Dataset: HG002 35× WGS, GIAB SV v0.6 deletion subset	0.752 precision fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [1,000-5,000) amp-protocol-hg002-cnv-1-5kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', K6; row [1,000-5,000); column CNVnator Precision
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion 1–5kb F-score Dataset: HG002 35× WGS, GIAB SV v0.6 deletion subset	0.264 recall fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [1,000-5,000) amp-protocol-hg002-cnv-1-5kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', J6; row [1,000-5,000); column CNVnator Recall
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion [10,000-20,0000) bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.976 f1-score fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [10,000-20,0000) cnv-20261009-protocol-behera2024-hg002-cnv-del-10-20kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', L8; row [10,000-20,0000); column CNVnator F-score
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion [10,000-20,0000) bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.98 precision fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [10,000-20,0000) cnv-20261009-protocol-behera2024-hg002-cnv-del-10-20kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', K8; row [10,000-20,0000); column CNVnator Precision
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion [10,000-20,0000) bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.972 recall fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [10,000-20,0000) cnv-20261009-protocol-behera2024-hg002-cnv-del-10-20kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', J8; row [10,000-20,0000); column CNVnator Recall
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion [20,000-50,000) bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.949 f1-score fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [20,000-50,000) cnv-20261009-protocol-behera2024-hg002-cnv-del-20-50kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', L9; row [20,000-50,000); column CNVnator F-score
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion [20,000-50,000) bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.984 precision fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [20,000-50,000) cnv-20261009-protocol-behera2024-hg002-cnv-del-20-50kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', K9; row [20,000-50,000); column CNVnator Precision
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion [20,000-50,000) bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.916 recall fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [20,000-50,000) cnv-20261009-protocol-behera2024-hg002-cnv-del-20-50kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', J9; row [20,000-50,000); column CNVnator Recall
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion [5,000-10,000) bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.618 f1-score fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [5,000-10,000) cnv-20261009-protocol-behera2024-hg002-cnv-del-5-10kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', L7; row [5,000-10,000); column CNVnator F-score
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion [5,000-10,000) bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.796 precision fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [5,000-10,000) cnv-20261009-protocol-behera2024-hg002-cnv-del-5-10kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', K7; row [5,000-10,000); column CNVnator Precision
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion [5,000-10,000) bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.505 recall fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion [5,000-10,000) cnv-20261009-protocol-behera2024-hg002-cnv-del-5-10kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', J7; row [5,000-10,000); column CNVnator Recall
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion >50,000 bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.99 f1-score fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion >50,000 cnv-20261009-protocol-behera2024-hg002-cnv-del-gt50kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', L10; row >50,000; column CNVnator F-score
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion >50,000 bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.998 precision fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion >50,000 cnv-20261009-protocol-behera2024-hg002-cnv-del-gt50kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', K10; row >50,000; column CNVnator Precision
Configuration: CNVnator comparator (Behera et al. Table S4)	Protocol: HG002 GIAB v0.6 CNV deletion >50,000 bp (DRAGEN Table S4) Dataset: HG002 35x WGS, GIAB SV v0.6 deletions >1 kb, Table S4 length bins	0.982 recall fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible	Independent external evaluation · Source checked Methods, coverage and source CNVnator deletion >50,000 cnv-20261009-protocol-behera2024-hg002-cnv-del-gt50kb Aggregation: Not reported Comprehensive genome analysis and variant detection at scale using DRAGEN; DRAGEN supplementary tables 1–17 · Supplementary Tables XLSX sheet 'S4 CNV benchmarking', J10; row >50,000; column CNVnator Recall

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Evidence

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Sources and history

Release 2026-10-09-8eac2440869c · Record review: source checked

2 source records and release history

Comprehensive genome analysis and variant detection at scale using DRAGEN · Original source · 2024-10-25 version of record; code-availability correction 2024-12-02; July 2025 issue
DRAGEN supplementary tables 1–17 · Original source · MOESM3 XLSX retrieved 2026-10-07

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Technical metadata and extraction receipts

Stable ID: cnv-20261009-config-behera2024-cnvnator

areas: dna-genomes
contexts: clinical_research
method types: conventional_pipeline
reported name: CNVnator
missing metadata: version: reason: unreported; note: Table S4 header prints only 'CNVnator'. The AMP intake notes v0.4.1 from the article text; the article HTML was not re-read in this pass, so the version is left unset here.
foundation model eligible: false

Related records

configuration of: CNVnator
system: CNVnator deletion [1,000-5,000)
system: CNVnator deletion [10,000-20,0000)
system: CNVnator deletion [20,000-50,000)
system: CNVnator deletion [5,000-10,000)
system: CNVnator deletion >50,000

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