instadeepai nucleotide-transformer issues

instadeepai / nucleotide-transformer

🧬 Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics

https://www.biorxiv.org/content/10.1101/2023.01.11.523679v2

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pretraining the nucleotide-transformer

#81 mpage21 opened 5 days ago
2
The shape of embedding issue

#80 WhiteNan opened 1 month ago
2
Detection Threshold(s) for SegmentNT

#79 zsewa closed 1 month ago
1
SegmentNT with a frozen encoder?

#78 Azai-yx opened 3 months ago
0
A little bit different embeddings between jax and pytorch models

#77 nzhang89 closed 3 months ago
2
question about the arguments within the get_pretrained_model() function

#76 hongruhu opened 3 months ago
0
72 load the checkpoints from hf

#75 dallatt closed 4 months ago
0
feat: Fix inference notebook

#74 dallatt closed 4 months ago
0
Fix inference notebook

#73 dallatt closed 4 months ago
0
Load the checkpoints from HF

#72 dallatt closed 4 months ago
0
Update README

#71 JavierMenRev closed 4 months ago
0
Embeddings and hidden states of Agro-NT model (New to this field so please excuse my question if it is really naive/stupid.)

#70 NikeeShrestha closed 3 months ago
3
Zero Shot Data?

#69 fma231 closed 4 months ago
1
Can‘t reproduce SegmentNT's MCC score on segmenting 5UTR on test set (chr20 and chr21)

#68 JasonLinjc closed 6 months ago
1
how to get the segmentation dataset of genomics elements

#67 lightyisu closed 6 months ago
1
error while executing the Google Colab inference_nt notebook

#66 amitpande74 closed 6 months ago
2
The length of input sequence for SegmentNT

#65 hezt closed 6 months ago
1
where is the intermedia checkpoints

#64 TerminatorJ closed 6 months ago
1
how to deal with the seq position of reference genome?

#63 zzzseeu closed 6 months ago
1
Confusion about the max_positions value

#62 Cheerful0 closed 6 months ago
1
feat: Add verbose argument to bypass tqdm freeze

#61 dallatt closed 7 months ago
0
Enable downloading model without tqdm

#60 dallatt closed 7 months ago
0
Cannot download the pre-training weight

#59 HelloWorldLTY closed 7 months ago
2
feat: Add text in SegmentNT notebook

#58 dallatt closed 8 months ago
0
Add description to SegmentNT notebook

#57 dallatt closed 8 months ago
0
feat: Fix mismatch in sequence position for Fig.3 reproducibility

#56 dallatt closed 8 months ago
0
Fix mismatch in sequence position for Fig 3

#55 dallatt closed 8 months ago
0
feat: Remove unwanted prints in the forward function

#54 dallatt closed 8 months ago
0
Remove unwanted prints

#53 dallatt closed 8 months ago
0
feat: Extend SegmentNT notebook

#52 dallatt closed 8 months ago
0
Extend SegmentNT notebook

#51 dallatt closed 8 months ago
0
46 fix typos in colab notebook

#50 dallatt closed 8 months ago
0
46 fix typos in colab notebook

#49 dallatt closed 8 months ago
0
46 fix typos in colab notebook

#48 dallatt closed 8 months ago
0
46 fix typos in colab notebook

#47 dallatt closed 8 months ago
0
Fix typos in colab notebook

#46 dallatt closed 8 months ago
0
Port segment nt

#45 dallatt closed 8 months ago
0
v2 checkpoints for TensorFlow

#44 felbecker closed 9 months ago
3
Checkpoints are not downloading.

#43 princethewinner closed 8 months ago
1
Training process for Nucleotide Transformer Model

#42 ghost closed 6 months ago
1
NT nucleotide-level splice site prediction

#41 pabloacera closed 8 months ago
1
Update README.md

#40 eltociear closed 8 months ago
1
31 agront update

#39 e-trop closed 10 months ago
1
feat: Add agro nt model

#38 dallatt closed 10 months ago
0
Add Agro NT model

#37 dallatt closed 10 months ago
0
Bug: jax version issues on TPU Colab

#36 hlydecker opened 10 months ago
0
Provide more examples and real world use cases

#35 hlydecker opened 10 months ago
0
Inquiry Regarding Details of Section A.5.4

#34 yangzhao1230 closed 8 months ago
1
Can I simply take 'CLS' token as my sequence representations?

#33 Azai-yx closed 11 months ago
1
Prediction using fine-tined model with LoRA

#32 FadelBerakdar closed 9 months ago
1