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bowang-lab / scGPT

https://scgpt.readthedocs.io/en/latest/
MIT License
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The defination of high prediction confidence? #181

Open Lvxiang713 opened 3 months ago

Lvxiang713 commented 3 months ago

It was with great interest that I read your recent publication in Nature Methods titled "scGPT: toward building a foundation model for single-cell multi-omics using generative AI" . I found your work both intriguing and highly significant. However, upon thorough reading, I came across a problems: As described in the 'Attention mask for generative pretraining' section of your work and Supplementary Fig.1, during scGPT generation, only a few gene expression values with high prediction confidence are generated in each iteration. However, I have not seen how to define this high prediction confidence in the article. Could you please answer my question? image

subercui commented 3 months ago

Hi, thank you for your interest and question. I also saw some related questions from others and I would love to provide further explanation for this. While honestly speaking, I personally have been busy working on several new projects recently for a while. Could you please give me a few days for this? I will try to provide detailed explanations paired with code examples soon

Lvxiang713 commented 2 months ago

Thank you very much. I am looking forward to your reply

yusri-dh commented 1 month ago

Is there any update about the definition of prediction confidence?

Lvxiang713 commented 3 days ago

Is there any update about the definition of prediction confidence?

No, I am still confused of the prediction confidence