Repository Issue Activity (beta)

#376 [BUG] virtual atoms inherit `is_motif_atom_with_fixed_coord` after duplication

#375 [QUEST] How to use RFpeptides in RFdiffusion3 to design a macrocyclic peptide?

#374 [BUG] Hydrogen Bond Metrics Not Getting Calculated

#372 [BUG] RFdiffusion3 not respecting positions of fixed atoms in unindexed residues

#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?

#370 sheet_fraction and helix_fraction

#365 [BUG] RFD3 might have problems in reading PDB format file with HETATM inside.

#366 [QUEST] Inpainting residues with RFD3 only gives glycines

#362 [Bug]`int()` parsing failure when component contains `P` suffix during RFD3 input parsing

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#290 Apptainer/docker image out of date, contains broken RFD3 partial diffusion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

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