Issues

• New baseline: Delta V-s (supervised ensemble) for DMS substitutions

  OATML-Markslab/ProteinGym#120 · Filter by author Travis42 opened on Aug 15, 2026

• [New Model] cytolexmuta zero-shot map-fusion for DMS substitutions

  OATML-Markslab/ProteinGym#115 · Filter by author Zane12518 opened on Aug 15, 2026
  3

• New model: XSignal

  OATML-Markslab/ProteinGym#113 · Filter by author Billwanttobetop opened on Jul 23, 2026
  1

• New model: TabPFN3-ESMC600M supervised DMS baseline

  OATML-Markslab/ProteinGym#109 · Filter by author someguysomewhereoverthere opened on Jul 1, 2026

• Cannot download data

  OATML-Markslab/ProteinGym#107 · Filter by author yangkky opened on Jun 16, 2026

• Depositing new datasets

  OATML-Markslab/ProteinGym#105 · Filter by author drprfitay opened on May 6, 2026

• [Q] Preprocessing pipeline from raw experimental data to the substitutions_raw_DMS files

  OATML-Markslab/ProteinGym#104 · Filter by author yutaka-fj opened on Apr 8, 2026

• [New Model] StructureDCA

  OATML-Markslab/ProteinGym#103 · Filter by author MatsveiTsishyn opened on Mar 29, 2026

• Incorrect sequence / structure for POLG_HCVJF in ProteinGym_AF2_structures.zip

  OATML-Markslab/ProteinGym#101 · Filter by author morgankohler opened on Mar 28, 2026

• ESM-1b scoring strategy & v1.0→v1.1 score changes across all models

  OATML-Markslab/ProteinGym#99 · Filter by author ani11452 opened on Mar 7, 2026

• Empty DMS_substitutions_Spearman_DMS_level.csv

  OATML-Markslab/ProteinGym#97 · Filter by author caioartus opened on Jan 30, 2026

• Not sure how to call the pypi package

  OATML-Markslab/ProteinGym#96 · Filter by author lukaas33 opened on Jan 8, 2026

• Handling proteins with few or no MSA hits in proteinnpt

  OATML-Markslab/ProteinGym#94 · Filter by author zimu-yu opened on Dec 22, 2025
  1

• [New Model] PoET-2

  OATML-Markslab/ProteinGym#93 · Filter by author timt51 opened on Dec 17, 2025
  1

• Scripts for Clinical data benchmarks

  OATML-Markslab/ProteinGym#87 · Filter by author YinghuiChen-sky opened on Aug 21, 2025
  1

• Suggestion on Including More Combinatorially Complete Landscapes

  OATML-Markslab/ProteinGym#85 · Filter by author EvenStarArwen opened on Aug 11, 2025
  1

• Mapping protein IDs from NP to ENSP

  OATML-Markslab/ProteinGym#72 · Filter by author bschilder opened on Feb 25, 2025
  9

  

• Inconsistencies across raw sub vs. indel files

  OATML-Markslab/ProteinGym#61 · Filter by author bschilder opened on Jan 16, 2025
  4

  

• Processing of dbNSFP

  OATML-Markslab/ProteinGym#57 · Filter by author davidjakubosky opened on Dec 13, 2024
  3

  

• Inconsistent alignments between DMS of the same region of GB1

  OATML-Markslab/ProteinGym#44 · Filter by author aaronkollasch opened on Aug 9, 2024
  

• Domain alignments

  OATML-Markslab/ProteinGym#43 · Filter by author deboramarks opened on Aug 9, 2024
  

• TranceptEVE indel scoring doesn't like end-of-sequence insertions

  OATML-Markslab/ProteinGym#37 · Filter by author carolc24 opened on Jul 14, 2024