Issues

• How can I use PertData with PyTorch DDP DistributedSampler?

  snap-stanford/GEARS#100 · Filter by author l024258 opened on Nov 24, 2025

• simulation_single error

  snap-stanford/GEARS#99 · Filter by author yangqi-su opened on Nov 13, 2025

• Model does not converge when running model_tutorial.ipynb (loss increases after training)

  snap-stanford/GEARS#96 · Filter by author zz310 opened on Sep 12, 2025
  2

• Error when working with Norman pretrained model

  snap-stanford/GEARS#93 · Filter by author igrabski opened on Mar 12, 2025
  3

• please update version in pypi

  snap-stanford/GEARS#91 · Filter by author vjcitn opened on Feb 12, 2025

• Missing files for reproducing Fig 3c

  snap-stanford/GEARS#89 · Filter by author chinaliye opened on Oct 28, 2024

• How canI generate go_essential_all for mouse

  snap-stanford/GEARS#84 · Filter by author mabaoweireadingene opened on Sep 6, 2024

• Question about mean baseline

  snap-stanford/GEARS#82 · Filter by author Leafaeolian opened on Aug 29, 2024

• Pretrained Reploge2022 model

  snap-stanford/GEARS#80 · Filter by author Jiahao-Gao opened on Jul 29, 2024

• Questions about creating pertdata with own data files

  snap-stanford/GEARS#79 · Filter by author HelloWorldLTY opened on Jul 14, 2024
  4

• Unpickling Error in gene_set_path

  snap-stanford/GEARS#76 · Filter by author bioinfonewguy opened on Jul 2, 2024
  3

• simulation_single option with pert_data.prepare_split gives ValueError

  snap-stanford/GEARS#72 · Filter by author murthy1770 opened on Jun 2, 2024
  3

• Environments (versions of packages) to run GEARS

  snap-stanford/GEARS#70 · Filter by author wcanisay-y opened on May 20, 2024

• Mixup in hyperparameters for H_pert H_gene?

  snap-stanford/GEARS#69 · Filter by author mhorlacher opened on May 15, 2024

• Custom PertData new_data_process error

  snap-stanford/GEARS#62 · Filter by author Yonggie opened on Apr 3, 2024
  2

• Questions about reproduction of Figure2f and Figure2cd

  snap-stanford/GEARS#58 · Filter by author yyy6812 opened on Mar 24, 2024
  1

• tutorial_inference_Norman.ipynb is out-of-date

  snap-stanford/GEARS#44 · Filter by author jzqin opened on Jan 19, 2024
  5