Issues

Issues

• Enviroment set up problem

  DeepGraphLearning/GearNet#71 · opened on Dec 12, 2025

• How to pass the protein pdb file to the released model weight: (mc_gearnet_edge.pth)

  DeepGraphLearning/GearNet#69 · opened on Aug 22, 2024
  1

• How to check the representation of a 3D structure data

  DeepGraphLearning/GearNet#68 · opened on Aug 22, 2024

• Working with batches of proteins with different sizes

  DeepGraphLearning/GearNet#66 · opened on Jul 9, 2024

• Why is the Batch Size for Downstream Tasks Set to 2? It Seems Quite Slow

  DeepGraphLearning/GearNet#65 · opened on Jul 8, 2024

• About data_setting from species_start: 0 to species_end: 22 of alphafolddb_v2

  DeepGraphLearning/GearNet#64 · opened on Jun 29, 2024

• how Fmax and AUPRC are calculated?

  DeepGraphLearning/GearNet#63 · opened on May 7, 2024

• Problems in using "fold_mc_gearnet_edge_ieconv.pth"

  DeepGraphLearning/GearNet#62 · opened on May 4, 2024

• Problems in using FC dataset

  DeepGraphLearning/GearNet#61 · opened on Mar 30, 2024
  2

• Seeking help for dataset

  DeepGraphLearning/GearNet#60 · opened on Mar 14, 2024
  4

• RuntimeError: shape '[31, 147]' is invalid for input of size 651 in extracting embbeding from pdb files

  DeepGraphLearning/GearNet#59 · opened on Dec 17, 2023
  6

• Extract the structure embeddings

  DeepGraphLearning/GearNet#58 · opened on Dec 12, 2023
  1

• What is input (Tensor) – input node representations for GearNet

  DeepGraphLearning/GearNet#57 · opened on Dec 7, 2023
  1

• Custom dataset. Data preprocessing

  DeepGraphLearning/GearNet#52 · opened on Oct 9, 2023
  1

• Node classification tasks

  DeepGraphLearning/GearNet#51 · opened on Sep 27, 2023
  3

• Pre-trained weight for ESM-GearNet

  DeepGraphLearning/GearNet#49 · opened on Sep 8, 2023
  4

• Solution when alpha carbon coordinate is missing

  DeepGraphLearning/GearNet#46 · opened on Aug 9, 2023
  1

• A dataset not found when I run "python script/pretrain.py -c config/pretrain/mc_gearnet_edge.yaml --gpus [0]"

  DeepGraphLearning/GearNet#45 · opened on Aug 1, 2023
  5

• confusion on epochs

  DeepGraphLearning/GearNet#44 · opened on Aug 1, 2023
  3

• atom view

  DeepGraphLearning/GearNet#42 · opened on Jul 26, 2023
  1

• The pre-trained GearNet-Edge model for Fold Classification

  DeepGraphLearning/GearNet#41 · opened on Jul 25, 2023
  5

• Explainability

  DeepGraphLearning/GearNet#27 · opened on May 11, 2023
  1

• error in mc_esm_gearnet

  DeepGraphLearning/GearNet#20 · opened on Apr 1, 2023
  3

• ERROR:torch.distributed.elastic.multiprocessing.api:failed (exitcode: -6) local_rank: 0 (pid: 20) of binary....

  DeepGraphLearning/GearNet#13 · opened on Dec 12, 2022
  1