Rphenograph implementation using the vgm[["GEX"]] matrix

[zoqaiyum]

Hi @alexyermanos @tudorcotet

I understand that UMAP, tSNE, and PCA projections are included in the vgm matrix object when understanding gene expression. However, I want to implement Phenograph clustering using Rphenograph (or any other supplementary package to Platypus). Could you please guide me through how I could obtain Phenograph clusters and visualize them using UMAP axes?

Thanks.

[zoqaiyum]

I figured it out, thanks anyway.