If I perform PCA and UMAP again after cell clustering, will the shape of the UMAP graph change? #9485
TangBluebird
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##Code as Below######################################################
CD8Tmem<- SetIdent(CD8Tmem, value = "MainType")
CD8Tmem<- ScaleData(CD8Tmem)
CD8Tmem<- RunPCA(CD8Tmem, npcs = 15, verbose = FALSE)
CD8Tmem<- RunUMAP(CD8Tmem, dims = 1:15)
DimPlot(CD8Tmem, reduction = "umap", label = FALSE, group.by = "MainType")
###################################################################
After defining the cell type of CD8Tmem, I set the cell type of CD8Tmem according to SetIdent. On this basis, I re-execute the process of ScaleData, RunPCA and RunUMAP for CD8Tmem.
My question is::will the UMAP graph obtained in this way have a different shape from the UMAP graph formed before?
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