Can I use velocyto.py to get the velocyto plot on seurat dimensionality reduction

[yanglq-bio]

Hi , my scRNA data is get the cluster results by seurat(all 6 samples),and I want used the tools to calculate all cluster's velocyto results. I already get the loom files,and merged it.And then what can I do it? the memory of merged.loom is 4.5G，I’m a little concerned about the amount of data.I tried used velocyto.R to load the loom file ,my systerm memory is 128G,then I got the memory error,I wonder if it would be better to use Python.

[hartlama]

Hello, I did something similar by exporting the UMAP values for each cell from Seurat in R and importing them in Python and adding them as metadata to the velocity object created using a package called scvelo. Hope this leads you in a direction you're interested in.