I was supposed to use the code below to get the number of cells per cluster. The code works with Seurat version 2, but while using version 3 I got the error
no slot of name "ident" for this object of class "Seurat". Does anyone have any idea about how to deal with this?
# Calculate number of cells per cluster from object@ident cell.num <- table(shox2crepos_mtmg@ident) # Add cell number per cluster to cluster labels ClusterLabels = paste("Cluster", names(cell.num), paste0("(n = ", cell.num, ")")) # Order legend labels in plot in the same order as 'ClusterLabels' ClusterBreaks = names(cell.num) # Plot tSNE with new legend labels for clusters TSNEPlot(object = shox2crepos_mtmg, do.return = T) + scale_colour_discrete(breaks = ClusterBreaks, labels = ClusterLabels) + labs(x = "t-SNE 1", y = "t-SNE 2")