Hello,
it's me again.
Another suggestion for improvement:
To select the cells according to nCount_RNA in the "VlnPlot (Filter Cells)" tab.
Filtering on nFeature_RNA eliminates heterotypic doublets (2 different cell types, which express different genes: nFeature_RNA and nCount_RNA are higher).
Filtering on nCount_RNA eliminates heterotypic doublets, and also homotypic doublets (2 cells of the same type, which express the same genes: nCount_RNA is higher but nFeature_RNA remains unchanged).
Hello, it's me again. Another suggestion for improvement: To select the cells according to nCount_RNA in the "VlnPlot (Filter Cells)" tab. Filtering on nFeature_RNA eliminates heterotypic doublets (2 different cell types, which express different genes: nFeature_RNA and nCount_RNA are higher). Filtering on nCount_RNA eliminates heterotypic doublets, and also homotypic doublets (2 cells of the same type, which express the same genes: nCount_RNA is higher but nFeature_RNA remains unchanged).