scv.utils.get_cell_ transitions() different results with indices and with UMAP basis

[alexandra-valeanu]

Hi,

In the first case I obtained the coordinates as suggested by @VolkerBergen in #191. In the second case I followed the basic tutorial.

Shouldn't the two plots look the same? Am I missing something?

To compute the RNA velocity I used the following:

adata = scv.datasets.pancreas()

scv.pp.moments(adata)
scv.tl.velocity(adata,mode='stochastic', n_jobs=-1)
scv.tl.velocity_graph(adata, n_jobs=-1)

scv.tl.score_genes_cell_cycle(adata)
scv.tl.velocity_confidence(adata)
scv.tl.velocity_pseudotime(adata)