Issues

• Labels for the pretraining dataset

  MAGICS-LAB/DNABERT_2#153 · Filter by author msafari18 opened on Apr 10, 2026

• Transformers Version 4.29.2 is unsuitable for LoRA

  MAGICS-LAB/DNABERT_2#152 · Filter by author hy-0003 opened on Sep 29, 2025
  1

• I am getting a compilation error while fine tuning the model likely an environment or library compatibility issue

  MAGICS-LAB/DNABERT_2#151 · Filter by author ChPuru opened on Sep 3, 2025

• lr scheduler

  MAGICS-LAB/DNABERT_2#150 · Filter by author msafari18 opened on Aug 19, 2025

• Clarification Requested on Nucleotide Count in DNABERT2 Pre-training Data (Table 11 vs. Provided Files)

  MAGICS-LAB/DNABERT_2#149 · Filter by author KehanChen510 opened on Aug 7, 2025

• Pre-training performance issue

  MAGICS-LAB/DNABERT_2#148 · Filter by author Peekaboo-ai opened on Jul 30, 2025
  2

• Unable download the pre-trained model 0f DNABERT-2-117M

  MAGICS-LAB/DNABERT_2#147 · Filter by author Lucas20-la opened on Jul 20, 2025
  1

• Details about pre-train data

  MAGICS-LAB/DNABERT_2#146 · Filter by author rxa615 opened on Jul 8, 2025

• Include .safetensors on Hugging Face

  MAGICS-LAB/DNABERT_2#144 · Filter by author boboppie opened on Jun 1, 2025

• Getting triton compiler error while running the inference code mentioned in the README.

  MAGICS-LAB/DNABERT_2#140 · Filter by author sahiljoshi515 opened on Mar 22, 2025

• Request for pretraining script

  MAGICS-LAB/DNABERT_2#138 · Filter by author AstroSign opened on Feb 6, 2025
  4

• Promoter Detection Class Labels in GUE Dataset

  MAGICS-LAB/DNABERT_2#137 · Filter by author mprincipato opened on Jan 30, 2025

• BertForMaskedLM

  MAGICS-LAB/DNABERT_2#136 · Filter by author RobinLi7 opened on Jan 28, 2025

• CUDA out of memory error

  MAGICS-LAB/DNABERT_2#134 · Filter by author prashant-iiitd opened on Jan 15, 2025

• RuntimeError with Shared Tensors in DNABERT-2-117M Configuration Using run_mlm.py

  MAGICS-LAB/DNABERT_2#130 · Filter by author RobinLi7 opened on Dec 22, 2024
  3

• Shapley plot

  MAGICS-LAB/DNABERT_2#126 · Filter by author AnshulVerma01 opened on Nov 9, 2024

• finetune results seems not very stable

  MAGICS-LAB/DNABERT_2#125 · Filter by author maris205 opened on Oct 29, 2024
  5

• finetune error

  MAGICS-LAB/DNABERT_2#123 · Filter by author maris205 opened on Oct 29, 2024
  3

• readme for GUE datasets?

  MAGICS-LAB/DNABERT_2#120 · Filter by author maris205 opened on Oct 17, 2024
  1

• Logits and Labels are different shapes

  MAGICS-LAB/DNABERT_2#119 · Filter by author SamuelTWu opened on Oct 16, 2024

• Suggest better error message than 'assert q.is_cuda and k.is_cuda and v.is_cuda'

  MAGICS-LAB/DNABERT_2#112 · Filter by author richelbilderbeek opened on Sep 9, 2024
  2

• How to use fine tuned model for prediction?

  MAGICS-LAB/DNABERT_2#111 · Filter by author AnshulVerma01 opened on Sep 1, 2024
  2

• Where are your Species Classification datasets?

  MAGICS-LAB/DNABERT_2#110 · Filter by author andreyfsch opened on Aug 27, 2024

• Is it possible to publish the detailed requirement file?

  MAGICS-LAB/DNABERT_2#107 · Filter by author nettanetta opened on Aug 11, 2024

• Is there a way to turn off the setting to use flash attention/triton library?

  MAGICS-LAB/DNABERT_2#104 · Filter by author vivektreddy opened on Jul 27, 2024
  3