Chen Li

I can share the Velocyto loom file through email if you share the address with me.

Hi @xixi-cathy, thank you for pointing out the problem! The notebooks on RTD have been updated to fix this issue.

Hi, thank you for using the package. To use multiple samples, one needs to first remove batch effects if there are any. The procedure can be a little complicated, and...

Hi, we didn't use expressed repeat masks when running Velocyto.

Hi. We don't usually recommend running RNA velocity methods for datasets such as PBMC because those consist of largely terminal non-differentiating cell types. MultiVelo doesn't natively support velocity pseudotime, but...

Hi. All the above approaches are valid solutions. The second approach can boost the ATAC signal a little bit more. You can create a custom feature_linkage file combining the peak-peak...

Because I don't know the detail of your analysis, I cannot propose a method that guarantees to work. I imagine that it requires some batch correction and joint velocity inference....