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1 evaluation · 1 result. Different protocols are not a single leaderboard.
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| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: AlphaPeptDeep retrained on PROSPECT (PepSpecBench) | Protocol: PepSpecBench PROSPECT-Mini test split, median SAS Dataset: PepSpecBench PROSPECT-Mini test split | 0.722 Spectral angle similarity (median over spectra, shared canonical fragment space) unitless · higher Uncertainty: Not reported by the source Coverage: Not reported scored / Not reported eligible | Independent external evaluation · Source checkedMethods, coverage and sourceAlphaPeptDeep (trained on PROSPECT) on PROSPECT-Mini test split, SAS lit-otheromics-20261011-pepspecbench-protocol-prospect-sas Aggregation: Not reported PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction · Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' |
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PepSpecBench PROSPECT-Mini test split, median SAS
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18 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Comparison: adaptation Retrained on PROSPECT; no adaptation to the evaluation set Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: aggregation Median over spectra Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: budget Not reported Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: dataset version PepSpecBench v1 Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: inputs Peptide sequence with PTMs, precursor charge and NCE Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: metric implementation SAS in the shared canonical fragment space Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: population Not reported Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | missing or unspecified No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: protocol id lit-otheromics-20261011-pepspecbench-protocol-prospect-sas Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Comparison: split Backbone-disjoint test Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Origin independent_paper Context-only references | PepSpecBench: A Unified Evaluation Benchmark for Peptide Tandem Mass Spectrometry Prediction Table 2, row 'AlphaPeptDeep', column group 'PROSPECT', column 'SAS' Version: arXiv:2605.01945v1 (submitted 2026-05-03), arXiv HTML rendering | not individually reviewed No individual claim review recorded independent paper Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Release 2026-10-23-5347695500ed · Record review: source checked
Stable ID: lit-otheromics-20261011-pepspecbench-eval-alphapeptdeep-trained-prospect-prospect-sas