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rewirebench: ProteinGym scoring code

f80cef7f818bec33e51b7f43ad499eb5078c8d87

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1 protocol
2 evidence claims

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Relevance of rewire-proteingym-v1-3-dms-substitutions to use-case-protein-stability: Assessed by ProteinGym v1.3 zero-shot DMS substitutions (vep-lit-20261014-source-proteingym-dms-substitutions-spearman-summary-144fe22: Summary_performance_DMS_substitutions_Spearman.csv column Function_Stability; performance_DMS_benchmarks.py lines 336-348)
Relevance of rewire-proteingym-v1-3-dms-substitutions to use-case-protein-variant-effect-prediction: Assessed by ProteinGym v1.3 zero-shot DMS substitutions (vep-lit-20261014-source-proteingym-dms-substitutions-spearman-summary-144fe22: Summary_performance_DMS_substitutions_Spearman.csv; performance_DMS_benchmarks.py lines 269-348; run-doc-proteingym-readme-md-144fe22b: README line 22 (217 DMS assays) and lines 66-70)

Models, benchmarks and other records

Protocols (1)

ProteinGym v1.3 zero-shot DMS substitutions

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16 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-11-02-a7f03c9e55a5
Property and statement	Original source and location	Review and provenance
Artifact format text Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_format` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text
Artifact SHA-256 2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871 Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_sha256` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text
Hash scope complete file bytes Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `attributes.hash_scope` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text
Retrieved at 2026-09-17 Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `attributes.retrieved_at` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text
Review: method note AI-assisted implementation and protocol review Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `attributes.review.method_note` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text
Review method 1 values ai-assisted-source-review Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `attributes.review.method` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text
Source location packages/rewirebench/src/rewirebench/protocols/proteingym.py Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `attributes.source_locator` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text
Url https://github.com/rewire-bio/rewire-benchmarks/blob/f80cef7f818bec33e51b7f43ad499eb5078c8d87/packages/rewirebench/src/rewirebench/protocols/proteingym.py Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `attributes.url` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text
Version f80cef7f818bec33e51b7f43ad499eb5078c8d87 Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `attributes.version` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text
Description No value recorded Source metadata	rewirebench: ProteinGym scoring code Original source ↗ No field-specific location recorded Version: f80cef7f818bec33e51b7f43ad499eb5078c8d87 Retrieved: 2026-09-17	catalogued No individual claim review recorded Audit details Field: `description` Source artifact SHA-256: `2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871` Hash scope: complete file bytes Format: text

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Release 2026-11-02-a7f03c9e55a5 · Record review: source checked

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Technical metadata and extraction receipts

Stable ID: runner-recipe-packages-rewirebench-src-rewirebench-protocols-proteingym-py-f80cef7f

url: https://github.com/rewire-bio/rewire-benchmarks/blob/f80cef7f818bec33e51b7f43ad499eb5078c8d87/packages/rewirebench/src/rewirebench/protocols/proteingym.py
version: f80cef7f818bec33e51b7f43ad499eb5078c8d87
retrieved at: 2026-09-17
artifact sha256: 2d62959db5611b1c7c1c7e8e44056e96c90b3f52975b2080bc36da576f0ac871
hash scope: complete file bytes
artifact format: text
source locator: packages/rewirebench/src/rewirebench/protocols/proteingym.py
review: method: ai-assisted-source-review; method note: AI-assisted implementation and protocol review

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