Repository Issue Activity (beta)

#336 [QUEST]multiple GPUs

#239 MPNN confidences

#335 [BUG] Denoised and noisy trajectories are accidentally swapped during reshaping in inference engine

#332 [QUEST] Usage of PSSM with new ProteinMPNN

#328 sugar chains

#331 FastRelax on RF3 structures

#330 [BUG] RFD3 unindexed motif loss uses an atom-level mask as a token-level mask

#289 Strategies for retaining the hydrogen-bond donor/acceptor architecture defined in the RFD3 active-site model during LigandMPNN sequence optimization

#329 RFD3 unindexed motif loss uses an atom-level mask as a token-level mask

#290 Apptainer/docker image out of date, contains broken RFD3 partial diffusion

#291 [QUEST]

#170 seed

#280 Ambiguous inter-chain attention indices definition

#278 [BUG] RFD3 symmetry fails for odd dihedral groups D3/D5

#279 [QUESTION] Regarding RFpeptides/macrocycle design but in RFD 3

#277 How to properly fix target protein chains when using ProteinMPNN CIF output as input to RF3, so that only the binder chain folds while the target remains unchanged?

#274 Diffusion of unindexed fixed residues islands with unindexed unfixed island

#276 [BUG] RFD3 is missing training data artifacts

#27 Instructions for generating MSA

#160 Feature request: interface distance restraints for RF3

#221 Issue with foundry 0.1.9 docker image and missing cc compiler for

#272 infer_ori_from_hotspots has incorrect behavior when hotspots near origin

#271 Missing ligand at zero occupancy

#270 Questions/issues during retraining RFD3

#247 Partial diffusion returning the input molecule without modifications