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feature request: LLM generated gene sets #745

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zia1138 opened this issue Nov 27, 2024 · 0 comments
Open

feature request: LLM generated gene sets #745

zia1138 opened this issue Nov 27, 2024 · 0 comments

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@zia1138
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zia1138 commented Nov 27, 2024

Dear @GuangchuangYu, Awesome work with clusterProfiler. I was curious if you'd be willing to add a new feature to clusterProfiler: LLM generated gene sets. We wrote this pre-print on generating gene sets https://www.biorxiv.org/content/10.1101/2024.11.11.621189v1 using OpenAI's gpt-4o, etc. Our evaluation suggests the gene sets are pretty good and we created a prototype tool https://github.com/Alector-BIO/llm2geneset (no where near as functional/stable as clusterProfiler). Would be cool to see LLMs integrated into clusterProfiler.

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