scRNA seq analysis - how to label cell types from clusters
Hello,
I have followed this tutorial/workflow and managed to create a UMAP plot with labelled clusters (1-12 using the patient 1 of GSE162454 dataset from NCBI): https://holab-hku.github.io/Fundamental-scRNA/downstream.html#run-non-linear-dimensional-reduction-umaptsne
However, the tutorial did not show how to create a UMAP plot with cell types labelled using marker genes.
Does anyone have an r code (Version 4.3.1) or workflow for that step.
Kind regards,
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I have followed this tutorial https://www.singlecellcourse.org/single-cell-rna-seq-analysis-using-seurat.html#cell-type-annotation-using-singler and the result is this UMAP plot. There is a bit of overlap with the cell type names, is it clear enough to use/follow? Or should I follow a different workflow