| Configuration: BLAST 2.12.0 blastn, top hit (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.977 Accuracy (16-class long-sequence RVDB dataset) fraction · higher Uncertainty: 95% CI 0.950 to 0.989. Wilson binomial interval quoted in Section 3.8; method stated in Section 2.9 Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBLAST (blastn) on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'BLAST (blastn)', column 'Accuracy' |
|---|
| Configuration: BLAST 2.12.0 blastn, top hit (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.977 Balanced accuracy (16-class long-sequence RVDB dataset) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBLAST (blastn) on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'BLAST (blastn)', column 'Bal. Acc.' |
|---|
| Configuration: BLAST 2.12.0 blastn, top hit (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.977 Macro F1 (16-class long-sequence RVDB dataset) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBLAST (blastn) on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'BLAST (blastn)', column 'F1' |
|---|
| Configuration: BLAST 2.12.0 blastn, top hit (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.975 MCC (16-class long-sequence RVDB dataset) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBLAST (blastn) on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'BLAST (blastn)', column 'MCC' |
|---|
| Configuration: BLAST 2.12.0 blastn, top hit (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.978 Precision (16-class long-sequence RVDB dataset, macro-averaged over classes) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBLAST (blastn) on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'BLAST (blastn)', column 'Precision' |
|---|
| Configuration: BLAST 2.12.0 blastn, top hit (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.977 Recall (16-class long-sequence RVDB dataset, macro-averaged over classes) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceBLAST (blastn) on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'BLAST (blastn)', column 'Recall' |
|---|
| Configuration: DNABERT-2, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.786 Accuracy (16-class long-sequence RVDB dataset, chunk-scored) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2ᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'DNABERT-2ᵃ', column 'Accuracy' |
|---|
| Configuration: DNABERT-2, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.817 Balanced accuracy (16-class long-sequence RVDB dataset, chunk-scored) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2ᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'DNABERT-2ᵃ', column 'Bal. Acc.' |
|---|
| Configuration: DNABERT-2, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.813 Macro F1 (16-class long-sequence RVDB dataset, chunk-scored) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2ᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'DNABERT-2ᵃ', column 'F1' |
|---|
| Configuration: DNABERT-2, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.771 MCC (16-class long-sequence RVDB dataset, chunk-scored) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2ᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'DNABERT-2ᵃ', column 'MCC' |
|---|
| Configuration: DNABERT-2, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.814 Precision (16-class long-sequence RVDB dataset, chunk-scored, macro-averaged over classes) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2ᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'DNABERT-2ᵃ', column 'Precision' |
|---|
| Configuration: DNABERT-2, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.817 Recall (16-class long-sequence RVDB dataset, chunk-scored, macro-averaged over classes) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceDNABERT-2ᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'DNABERT-2ᵃ', column 'Recall' |
|---|
| Configuration: NTv2-250M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.831 Accuracy (16-class long-sequence RVDB dataset, chunk-scored) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-250Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-250Mᵃ', column 'Accuracy' |
|---|
| Configuration: NTv2-250M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.844 Balanced accuracy (16-class long-sequence RVDB dataset, chunk-scored) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-250Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-250Mᵃ', column 'Bal. Acc.' |
|---|
| Configuration: NTv2-250M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.842 Macro F1 (16-class long-sequence RVDB dataset, chunk-scored) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-250Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-250Mᵃ', column 'F1' |
|---|
| Configuration: NTv2-250M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.818 MCC (16-class long-sequence RVDB dataset, chunk-scored) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-250Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-250Mᵃ', column 'MCC' |
|---|
| Configuration: NTv2-250M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.844 Precision (16-class long-sequence RVDB dataset, chunk-scored, macro-averaged over classes) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-250Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-250Mᵃ', column 'Precision' |
|---|
| Configuration: NTv2-250M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.844 Recall (16-class long-sequence RVDB dataset, chunk-scored, macro-averaged over classes) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-250Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-250Mᵃ', column 'Recall' |
|---|
| Configuration: NTv2-50M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.853 Accuracy (16-class long-sequence RVDB dataset, chunk-scored) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-50Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-50Mᵃ', column 'Accuracy' |
|---|
| Configuration: NTv2-50M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.87 Balanced accuracy (16-class long-sequence RVDB dataset, chunk-scored) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-50Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-50Mᵃ', column 'Bal. Acc.' |
|---|
| Configuration: NTv2-50M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.869 Macro F1 (16-class long-sequence RVDB dataset, chunk-scored) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-50Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-50Mᵃ', column 'F1' |
|---|
| Configuration: NTv2-50M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.842 MCC (16-class long-sequence RVDB dataset, chunk-scored) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-50Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-50Mᵃ', column 'MCC' |
|---|
| Configuration: NTv2-50M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.871 Precision (16-class long-sequence RVDB dataset, chunk-scored, macro-averaged over classes) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-50Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-50Mᵃ', column 'Precision' |
|---|
| Configuration: NTv2-50M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.87 Recall (16-class long-sequence RVDB dataset, chunk-scored, macro-averaged over classes) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-50Mᵃ on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv2-50Mᵃ', column 'Recall' |
|---|
| Configuration: NTv3-650M, frozen embeddings, pooling not stated, 1-NN, long-sequence run (Bůžková et al. 2026) | Protocol: RVDB long-sequence viral classification, 16 classes (Bůžková et al. 2026 Table 10) Dataset: RVDB C-RVDB v31.0 long-sequence dataset, 16 classes | 0.953 Accuracy (16-class long-sequence RVDB dataset) fraction · higher Uncertainty: 95% CI 0.920 to 0.973. Wilson binomial interval quoted in Section 3.8; method stated in Section 2.9 Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv3-650M on the RVDB long-sequence dataset, 16 classes gfm2-20261011-buzkova2026-protocol-long Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 10, row 'NTv3-650M', column 'Accuracy' |
|---|