instadeepai/nucleotide-transformer

Issues

• SegmentNT with a frozen encoder?

  #78 opened 4 months ago by Azai-yx
  0

• A little bit different embeddings between jax and pytorch models

  #77 opened 4 months ago by nzhang89
  2

• Embeddings and hidden states of Agro-NT model (New to this field so please excuse my question if it is really naive/stupid.)

  #70 opened 4 months ago by NikeeShrestha
  3

• question about the arguments within the get_pretrained_model() function

  #76 opened 5 months ago by hongruhu
  0

• Load the checkpoints from HF

  #72 opened 5 months ago by dallatt
  0

• Zero Shot Data?

  #69 opened 5 months ago by fma231
  1

• Fix inference notebook

  #73 opened 5 months ago by dallatt
  0

• Update README

  #71 opened 5 months ago by JavierMenRev
  0

• error while executing the Google Colab inference_nt notebook

  #66 opened 7 months ago by amitpande74
  2

• how to get the segmentation dataset of genomics elements

  #67 opened 7 months ago by lightyisu
  1

• Can‘t reproduce SegmentNT's MCC score on segmenting 5UTR on test set (chr20 and chr21)

  #68 opened 7 months ago by JasonLinjc
  1

• Confusion about the max_positions value

  #62 opened 7 months ago by Cheerful0
  1

• how to deal with the seq position of reference genome?

  #63 opened 7 months ago by zzzseeu
  1

• where is the intermedia checkpoints

  #64 opened 7 months ago by TerminatorJ
  1

• The length of input sequence for SegmentNT

  #65 opened 7 months ago by hezt
  1

• Training process for Nucleotide Transformer Model

  #42 opened 7 months ago
  1

• Cannot download the pre-training weight

  #59 opened 9 months ago by HelloWorldLTY
  2

• Enable downloading model without tqdm

  #60 opened 9 months ago by dallatt
  0

• Add description to SegmentNT notebook

  #57 opened 9 months ago by dallatt
  0

• Fix mismatch in sequence position for Fig 3

  #55 opened 9 months ago by dallatt
  0

• Remove unwanted prints

  #53 opened 9 months ago by dallatt
  0

• Extend SegmentNT notebook

  #51 opened 9 months ago by dallatt
  0

• Inquiry Regarding Details of Section A.5.4

  #34 opened 9 months ago by yangzhao1230
  1

• NT nucleotide-level splice site prediction

  #41 opened 9 months ago by pabloacera
  1

• Checkpoints are not downloading.

  #43 opened 9 months ago by princethewinner
  1

• Fix typos in colab notebook

  #46 opened 10 months ago by dallatt
  0

• v2 checkpoints for TensorFlow

  #44 opened 10 months ago by felbecker
  3

• Prediction using fine-tined model with LoRA

  #32 opened 10 months ago by FadelBerakdar
  1

• Performance on RNA sequences

  #27 opened 10 months ago by vuhongai
  1

• hyenadna evaluation

  #25 opened 10 months ago by wawpaopao
  1

• 2 sequences as input

  #16 opened 10 months ago by hhy-joseph
  1

• Is the test split available?

  #15 opened 10 months ago by exnx
  0

• Pre-training on plant genomes

  #13 opened 10 months ago by zhaijj
  3

• Add Agro NT model

  #37 opened a year ago by dallatt
  0

• Bug: jax version issues on TPU Colab

  #36 opened a year ago by hlydecker
  0

• Provide more examples and real world use cases

  #35 opened a year ago by hlydecker
  0

• Can I simply take 'CLS' token as my sequence representations?

  #33 opened a year ago by Azai-yx
  1

• Update README.txt

  #30 opened a year ago by dallatt
  0

• Tutorial no longer works with the v2 models

  #26 opened a year ago by davidhbrann
  1

• Fix v2 api

  #28 opened a year ago by dallatt
  0

• model size mismatch

  #24 opened a year ago by Azai-yx
  2

• ModuleNotFoundError: No module named 'nucleotide_transformer.utils'

  #21 opened a year ago by nehmea
  2

• Fix missing module

  #22 opened a year ago by dallatt
  0

• Adapt README

  #19 opened a year ago by dallatt
  0

• Add NT v2 models

  #17 opened a year ago by dallatt
  0

• Huggingface checkpoints

  #14 opened 2 years ago by fteufel
  3

• Clarifications about context size

  #7 opened 2 years ago by gonzalobenegas
  2

• Fix default `max_positions` in `get_pretrained_model`

  #11 opened 2 years ago by GRichard513
  0

• clarifying context length and readme

  #9 opened 2 years ago by dallatt
  0

• Hugging Face Hub

  #6 opened 2 years ago by gonzalobenegas
  2