rewirebio.iobenchmarks
Configuration

Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)

4callers(voting>=2) as run in the cited comparison.

8 evaluations · 32 results

Overview

4callers(voting>=2) 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

8 evaluations · 32 results. Different protocols are not a single leaderboard.

Filter evaluations

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configurationProtocol and datasetFindingEvidence and details
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: AML tumour somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: Acute myeloid leukaemia tumour-normal WGS with platinum somatic list
1640 count
count · unknown

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on AML SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-aml-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', D89; dataset 'AML'; caller '4callers(voting>=2)'; column 'Count'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: AML tumour somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: Acute myeloid leukaemia tumour-normal WGS with platinum somatic list
0.824 f1-score
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on AML SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-aml-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', G89; dataset 'AML'; caller '4callers(voting>=2)'; column 'F1'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: AML tumour somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: Acute myeloid leukaemia tumour-normal WGS with platinum somatic list
0.75 precision
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on AML SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-aml-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', F89; dataset 'AML'; caller '4callers(voting>=2)'; column 'Precision'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: AML tumour somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: Acute myeloid leukaemia tumour-normal WGS with platinum somatic list
0.914 recall
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on AML SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-aml-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', E89; dataset 'AML'; caller '4callers(voting>=2)'; column 'Recall'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: CLL tumour somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: Chronic lymphocytic leukaemia tumour-normal WGS with curated somatic calls
1520 count
count · unknown

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on CLL SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-cll-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', D74; dataset 'CLL'; caller '4callers(voting>=2)'; column 'Count'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: CLL tumour somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: Chronic lymphocytic leukaemia tumour-normal WGS with curated somatic calls
0.781 f1-score
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on CLL SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-cll-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', G74; dataset 'CLL'; caller '4callers(voting>=2)'; column 'F1'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: CLL tumour somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: Chronic lymphocytic leukaemia tumour-normal WGS with curated somatic calls
0.73 precision
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on CLL SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-cll-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', F74; dataset 'CLL'; caller '4callers(voting>=2)'; column 'Precision'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: CLL tumour somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: Chronic lymphocytic leukaemia tumour-normal WGS with curated somatic calls
0.841 recall
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on CLL SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-cll-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', E74; dataset 'CLL'; caller '4callers(voting>=2)'; column 'Recall'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: COLO829 cell line somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: COLO829 metastatic melanoma cell line tumour-normal WGS with curated somatic calls
39900 count
count · unknown

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on COLO SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-colo829-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', D119; dataset 'COLO'; caller '4callers(voting>=2)'; column 'Count'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: COLO829 cell line somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: COLO829 metastatic melanoma cell line tumour-normal WGS with curated somatic calls
0.926 f1-score
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on COLO SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-colo829-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', G119; dataset 'COLO'; caller '4callers(voting>=2)'; column 'F1'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: COLO829 cell line somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: COLO829 metastatic melanoma cell line tumour-normal WGS with curated somatic calls
0.876 precision
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on COLO SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-colo829-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', F119; dataset 'COLO'; caller '4callers(voting>=2)'; column 'Precision'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: COLO829 cell line somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: COLO829 metastatic melanoma cell line tumour-normal WGS with curated somatic calls
0.982 recall
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on COLO SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-colo829-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', E119; dataset 'COLO'; caller '4callers(voting>=2)'; column 'Recall'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 1 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 1 (WGS)
3570 count
count · unknown

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set1 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set1-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', D14; dataset 'DREAM Set1'; caller '4callers(voting>=2)'; column 'Count'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 1 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 1 (WGS)
0.974 f1-score
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set1 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set1-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', G14; dataset 'DREAM Set1'; caller '4callers(voting>=2)'; column 'F1'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 1 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 1 (WGS)
0.97 precision
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set1 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set1-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', F14; dataset 'DREAM Set1'; caller '4callers(voting>=2)'; column 'Precision'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 1 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 1 (WGS)
0.978 recall
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set1 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set1-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', E14; dataset 'DREAM Set1'; caller '4callers(voting>=2)'; column 'Recall'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 2 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 2 (WGS)
4400 count
count · unknown

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set2 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set2-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', D29; dataset 'DREAM Set2'; caller '4callers(voting>=2)'; column 'Count'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 2 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 2 (WGS)
0.967 f1-score
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set2 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set2-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', G29; dataset 'DREAM Set2'; caller '4callers(voting>=2)'; column 'F1'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 2 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 2 (WGS)
0.959 precision
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set2 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set2-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', F29; dataset 'DREAM Set2'; caller '4callers(voting>=2)'; column 'Precision'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 2 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 2 (WGS)
0.975 recall
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set2 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set2-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', E29; dataset 'DREAM Set2'; caller '4callers(voting>=2)'; column 'Recall'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 3 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 3 (WGS)
7180 count
count · unknown

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set3 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set3-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', D44; dataset 'DREAM Set3'; caller '4callers(voting>=2)'; column 'Count'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 3 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 3 (WGS)
0.945 f1-score
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set3 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set3-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', G44; dataset 'DREAM Set3'; caller '4callers(voting>=2)'; column 'F1'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 3 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 3 (WGS)
0.993 precision
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set3 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set3-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', F44; dataset 'DREAM Set3'; caller '4callers(voting>=2)'; column 'Precision'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 3 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 3 (WGS)
0.902 recall
fraction · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set3 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set3-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', E44; dataset 'DREAM Set3'; caller '4callers(voting>=2)'; column 'Recall'
Configuration: Majority vote, 4 SNV callers, at least 2 agree (Wang et al. 2020)Protocol: DREAM synthetic set 4 somatic SNVs, WGS (Wang et al. 2020 Table S1)
Dataset: ICGC-TCGA DREAM synthetic set 4 (WGS)
10600 count
count · unknown

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

4callers(voting>=2) on DREAM Set4 SNVs (Wang et al. 2020)

somatic-20261009-protocol-wang2020-dream-set4-snv

Aggregation: Not reported

SomaticCombiner: improving the performance of somatic variant calling based on evaluation tests and a consensus approach; Wang et al. 2020, Supplementary Tables (somatic caller performance) · Supplementary Tables workbook sheet 'S1 WGS SNVs', D59; dataset 'DREAM Set4'; caller '4callers(voting>=2)'; column 'Count'

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Evidence

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Evidence table

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Release 2026-10-09-8cc1db47c7f9 · Record review: source checked

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Technical metadata and extraction receipts

Stable ID: somatic-20261009-config-wang2020-vote-4callers-min2

areas
dna-genomes
contexts
clinical_research
method types
conventional_pipeline
reported name
4callers(voting>=2)
protocol
Majority voting over LoFreq, MuSE, MuTect2 and Strelka; a call needs at least 2 callers
foundation model eligible
false
source locator
Methods, Somatic variant calling paragraph 1 and 2; Table S1/S2 row label '4callers(voting>=2)'
method role
Authors' own consensus approach evaluated alongside the individual callers
missing metadata
version: reason: inapplicable; note: Ensemble of the listed caller versions; no separate version
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