UMAP
Last updated
Last updated
The UMAP command in Panomics performs multiple processing steps. A Standard Compute
runtime is required.
* The Harmony batch effect correction algorithm operates on the PCA space, so PCA is computed first and then replaced by the harmonized PCA.
In the following example, we perform normalization, then UMAP with no batch correction. Coloring the embedding by the diagnosis and sample name observations reveals strong batch effects. We then run UMAP again with Harmony batch effect correction.