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heiniglab / scPower

Experimental design framework for scRNAseq population studies (eQTL and DE)
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How to use scPower to find the raw cell type #27

Closed SELECT-FROM closed 7 months ago

SELECT-FROM commented 7 months ago

Hello, I currently have a dataset. How can I use scPower to obtain which specific cells belong to the rare cell type?

KatharinaSchmid commented 7 months ago

Hi, sorry, I am a bit confused by your question. scPower was developed for experimental design, so how to best generate a new dataset, not for data analysis of existing datasets. It requires a cell type annotation as an input to estimate new expression priors for the power analysis, so the cell type annotation needs to be done before, scPower doesn't do that. But maybe I understand your questions wrong, can you elaborate it a bit more? If you want to identify rare cell types in your dataset, you could have a look at this tool: https://github.com/ScialdoneLab/CIARA Best, Katharina

SELECT-FROM commented 7 months ago

Hello, Thank you for your answer. My previous understanding was indeed problematic. Thank you for your correction and suggestions. Once again, thank you for your answer. Best