Does anyone know how this number became "default"? what is it based on? How deep is our knowledge of "average" , "healthy" gene expression of different cell types?
Sorry if my question is trivial for some; thank you for any insights!
Hi! Teadora Tyler , I've been learning about the Seurat analysis process recently. In response to your question, I think it goes like this: When we do the first step of data quality control, we get a violin diagram, and according to the violin diagram, in the example, the authors consider a gene number greater than 2500 as an "outlier", so we need to filter it. Therefore, the number "2500" is not fixed, and the "outliers" need to be filtered according to the results of the violin diagrams obtained from different data. I don't know if you understand, if you have any questions, we can talk again.
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