WaveNet
Fitness prediction model evaluated by the ProteinGym authors under their harness.
Overview
Fitness prediction model evaluated by the ProteinGym authors under their harness.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Evaluations and results
Release 2026-09-17-134cd1815de8 · 9 evaluations · 9 metric rows. Different protocols are not a single leaderboard. Where several source tables report the same metric, the published comparisons above offer a pooled view that names what it does not hold constant.
| Metric and finding | Coverage and uncertainty | Evidence |
|---|---|---|
| WaveNet on ProteinGym ZS-INDEL-AUC: Zero-shot indels, all assays, AUC Configuration: WaveNetTask: ProteinGym ZS-INDEL-AUC: Zero-shot indels, all assays, AUCDataset subset: ProteinGym indel DMS assays (ProteinGym split) Zero-shot scoring of insertion and deletion assays, split by how the test sequences were generated. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.720 auc Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Table 4, row(WaveNet), column(Zero-shot indels, all assays, AUC) Source checking is not independent reproduction. |
| WaveNet on ProteinGym ZS-INDEL-SPEARMAN-ALL: Zero-shot indels, all assays, Spearman Configuration: WaveNetTask: ProteinGym ZS-INDEL-SPEARMAN-ALL: Zero-shot indels, all assays, SpearmanDataset subset: ProteinGym indel DMS assays (ProteinGym split) Zero-shot scoring of insertion and deletion assays, split by how the test sequences were generated. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.368 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Table 4, row(WaveNet), column(Zero-shot indels, all assays, Spearman) Source checking is not independent reproduction. |
| WaveNet on ProteinGym ZS-INDEL-SPEARMAN-DESIGNED: Zero-shot indels, designed or natural assays, Spearman Configuration: WaveNetTask: ProteinGym ZS-INDEL-SPEARMAN-DESIGNED: Zero-shot indels, designed or natural assays, SpearmanDataset subset: ProteinGym indel DMS assays (ProteinGym split) Zero-shot scoring of insertion and deletion assays, split by how the test sequences were generated. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.597 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Table 4, row(WaveNet), column(Zero-shot indels, designed or natural assays, Spearman) Source checking is not independent reproduction. |
| WaveNet on ProteinGym ZS-INDEL-SPEARMAN-LIBRARY: Zero-shot indels, library assays, Spearman Configuration: WaveNetTask: ProteinGym ZS-INDEL-SPEARMAN-LIBRARY: Zero-shot indels, library assays, SpearmanDataset subset: ProteinGym indel DMS assays (ProteinGym split) Zero-shot scoring of insertion and deletion assays, split by how the test sequences were generated. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.323 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Table 4, row(WaveNet), column(Zero-shot indels, library assays, Spearman) Source checking is not independent reproduction. |
| WaveNet on ProteinGym ZS-SUB-AUC: Zero-shot substitutions, AUC Configuration: WaveNetTask: ProteinGym ZS-SUB-AUC: Zero-shot substitutions, AUCDataset subset: ProteinGym substitution DMS assays (ProteinGym split) Zero-shot scoring of substitution assays, averaged over assays with the correction the paper describes. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.707 auc Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Table 2, row(based WaveNet), column(Zero-shot substitutions, AUC) Source checking is not independent reproduction. |
| WaveNet on ProteinGym ZS-SUB-MCC: Zero-shot substitutions, MCC Configuration: WaveNetTask: ProteinGym ZS-SUB-MCC: Zero-shot substitutions, MCCDataset subset: ProteinGym substitution DMS assays (ProteinGym split) Zero-shot scoring of substitution assays, averaged over assays with the correction the paper describes. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.294 mcc Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Table 2, row(based WaveNet), column(Zero-shot substitutions, MCC) Source checking is not independent reproduction. |
| WaveNet on ProteinGym ZS-SUB-NDCG: Zero-shot substitutions, NDCG@10% Configuration: WaveNetTask: ProteinGym ZS-SUB-NDCG: Zero-shot substitutions, NDCG@10%Dataset subset: ProteinGym substitution DMS assays (ProteinGym split) Zero-shot scoring of substitution assays, averaged over assays with the correction the paper describes. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.761 ndcg Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Table 2, row(based WaveNet), column(Zero-shot substitutions, NDCG@10%) Source checking is not independent reproduction. |
| WaveNet on ProteinGym ZS-SUB-RECALL: Zero-shot substitutions, top 10% recall Configuration: WaveNetTask: ProteinGym ZS-SUB-RECALL: Zero-shot substitutions, top 10% recallDataset subset: ProteinGym substitution DMS assays (ProteinGym split) Zero-shot scoring of substitution assays, averaged over assays with the correction the paper describes. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.203 recall Unit: fraction · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Table 2, row(based WaveNet), column(Zero-shot substitutions, top 10% recall) Source checking is not independent reproduction. |
| WaveNet on ProteinGym ZS-SUB-SPEARMAN: Zero-shot substitutions, Spearman Configuration: WaveNetTask: ProteinGym ZS-SUB-SPEARMAN: Zero-shot substitutions, SpearmanDataset subset: ProteinGym substitution DMS assays (ProteinGym split) Zero-shot scoring of substitution assays, averaged over assays with the correction the paper describes. Author-reported evaluation · Evaluation metadata: source checked | ||
| 0.373 spearman Unit: correlation · Direction: higher | Uncertainty: Not reported Scored: Not reported · Eligible: Not reported | source checkedProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Table 2, row(based WaveNet), column(Zero-shot substitutions, Spearman) Source checking is not independent reproduction. |
Evidence table
Inspect claims, sources and review details
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One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
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Sources and history
Release 2026-09-17-134cd1815de8 · Record review: source checked
1 source records and release history
- ProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design · Original source · Primary full-text snapshot retrieved 2026-09-17; exact bytes pinned by SHA-256
Technical metadata and extraction receipts
Stable ID: proteingym-method-wavenet
- areas
- proteins-complexes
- source locator
- Table 2, row(based WaveNet)
- missing metadata
- checkpoint revision: unreported; parameters: unextracted
Related records
- model: WaveNet on ProteinGym ZS-INDEL-AUC: Zero-shot indels, all assays, AUC
- model: WaveNet on ProteinGym ZS-INDEL-SPEARMAN-ALL: Zero-shot indels, all assays, Spearman
- model: WaveNet on ProteinGym ZS-INDEL-SPEARMAN-DESIGNED: Zero-shot indels, designed or natural assays, Spearman
- model: WaveNet on ProteinGym ZS-INDEL-SPEARMAN-LIBRARY: Zero-shot indels, library assays, Spearman
- model: WaveNet on ProteinGym ZS-SUB-AUC: Zero-shot substitutions, AUC
- model: WaveNet on ProteinGym ZS-SUB-MCC: Zero-shot substitutions, MCC
- model: WaveNet on ProteinGym ZS-SUB-NDCG: Zero-shot substitutions, NDCG@10%
- model: WaveNet on ProteinGym ZS-SUB-RECALL: Zero-shot substitutions, top 10% recall
- model: WaveNet on ProteinGym ZS-SUB-SPEARMAN: Zero-shot substitutions, Spearman