one question about psuedo time inference

[YichaoOU]

Hi,

Does the algorithm have some weird behavior around the beginning or the end time point?

I'm not sure why 208 cells out of 4k cells all having 17.797586 as the pseudo time value. What parameters should I tune?

Thanks,
Yichao

[kstreet13]

Hi @YichaoOU ,

There are a couple different things that could be going on here, but it's hard to diagnose from this plot. Could you send a plot showing the dimensionality reduction you are using (including the curves produced by Slingshot) and the code you used to generate the curves, as well as the above plot? That should be enough to figure it out.

Best,
Kelly