Issues

• How to load alphafold 2 weights, or port weights from jax to PyTorch

  lucidrains/alphafold2#111 · Filter by author Anindyadeep opened on Mar 18, 2025

• The Alphafold2 class does not have the parameter XXX.

  lucidrains/alphafold2#110 · Filter by author nibingwei123 opened on Oct 12, 2024

• How to adjust the recycling times in model?

  lucidrains/alphafold2#109 · Filter by author Syaoran036 opened on May 15, 2023

• read me dimensions are off. Example to run alpha fold 2 msa, and seq lengths should be the same. One is 128, the other is 120.

  lucidrains/alphafold2#104 · Filter by author ofTarradiddle opened on Oct 25, 2021

• How can I get the coordinates of all the atoms?

  lucidrains/alphafold2#103 · Filter by author RayTang88 opened on Oct 13, 2021

• outerMean module question

  lucidrains/alphafold2#102 · Filter by author ifromeast opened on Oct 9, 2021
  1

• __init__() got an unexpected keyword argument 'structure_module_type'

  lucidrains/alphafold2#101 · Filter by author ifromeast opened on Sep 24, 2021
  4

• Can AlphaFold2 predict the structure of cyclic peptides?

  lucidrains/alphafold2#98 · Filter by author JustinDoIt opened on Sep 8, 2021
  1

• [todo] ensembling

  lucidrains/alphafold2#97 · Filter by author lucidrains opened on Aug 25, 2021

• [todo] structure module

  enhancement
  lucidrains/alphafold2#93 · Filter by author lucidrains opened on Jul 26, 2021
  3

• TypeError: __init__() got an unexpected keyword argument 'num_backbone_atoms'

  lucidrains/alphafold2#87 · Filter by author jackli777 opened on Jul 24, 2021
  3

• [todo] checkpointing

  enhancement
  lucidrains/alphafold2#81 · Filter by author lucidrains opened on Jul 20, 2021
  3

• [todo] BERT loss on MSA

  enhancement
  lucidrains/alphafold2#80 · Filter by author lucidrains opened on Jul 20, 2021
  4

• problem with alphafold2/train_pre.py

  lucidrains/alphafold2#76 · Filter by author jackli777 opened on Jul 20, 2021

• Basic pretrained models + quickstart instructions?

  lucidrains/alphafold2#61 · Filter by author TylerBalsam opened on Apr 13, 2021
  1

• Add PL Lightning to Enable Distributed Training and Deep Speed

  lucidrains/alphafold2#59 · Filter by author aribornstein opened on Apr 5, 2021
  3

• MSA tensor format

  lucidrains/alphafold2#56 · Filter by author panganqi opened on Mar 31, 2021
  5

• the sidechainnet pkg updates, the load function doesnot has parameter return_masks and the format of casp12 data from scn has changed, which is not compatible with train_end2end.py

  lucidrains/alphafold2#51 · Filter by author ditannan opened on Mar 17, 2021
  1