NTv2-500M, frozen embeddings, cls token only pooling, 1-NN (Bůžková et al. 2026)
NTv2-500M, frozen embeddings, cls token only pooling, 1-NN, a configuration of Nucleotide Transformer v2: 500M parameters; context 2,048; 6-mer tokenizer; frozen weights; CLS token only pooling; L2-normalised embeddings, FAISS IndexFlatIP, k = 1.
1 evaluation · 1 result1 open disagreement between studies involves its model
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| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: NTv2-500M, frozen embeddings, cls token only pooling, 1-NN (Bůžková et al. 2026) | Protocol: RVDB 33-class viral classification by nearest-neighbour retrieval over frozen embeddings (Bůžková et al. 2026 Table 3) Dataset: RVDB C-RVDB v31.0 primary dataset, 33 refined classes | 0.745 Accuracy (33-class RVDB dataset, 1-NN over frozen embeddings) fraction · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceNTv2-500M, cls token only pooling, on the RVDB 33-class dataset gfm2-20261011-buzkova2026-protocol-acc-33 Aggregation: Not reported Analyzing Genomic Foundation Models for Viral Sequence Identification · Table 3, column 'NTv2-500M', row 'CLS token only' |
Source checking is not independent reproduction. Release 2026-11-02-a7f03c9e55a5.
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Release 2026-11-02-a7f03c9e55a5 · Record review: source checked
1 source record and release history
- Analyzing Genomic Foundation Models for Viral Sequence Identification · Original source · bioRxiv v1, posted 2026-09-28
Technical metadata and extraction receipts
Stable ID: gfm2-20261011-buzkova2026-config-ntv2-500m-cls
- areas
- dna-genomes
- contexts
- research
- method types
- foundation_model
- reported name
- NTv2-500M
- foundation model eligible
- true
- source locator
- Table 2 row 'NTv2-500M'; Table 3 column 'NTv2-500M', row 'CLS token only'
- parameters
- 500M parameters; context 2,048; 6-mer tokenizer; frozen weights; CLS token only pooling; L2-normalised embeddings, FAISS IndexFlatIP, k = 1
- missing metadata
- version: reason: unreported; note: Official Hugging Face repository named but no revision is printed (Section 2.4)
- training setting
- Frozen weights, no parameter update; nearest-neighbour probe over labelled reference embeddings
- provenance note
- NTv2-500M, frozen embeddings, cls token only pooling, 1-NN (Bůžková et al. 2026), as evaluated in the cited comparison.
Related records
- configuration of: Nucleotide Transformer v2
- system: NTv2-500M, cls token only pooling, on the RVDB 33-class dataset