About scv.tl.paga function ,we set root and end on this function, bu we could not acquire a suitable paga graph #1008
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zhangshouwei309194
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Dear Author:
When i run scv.tl.velocity_pseudotime, i set root_key and end_key and then i get a suitable graph. As follows:
scv.tl.velocity_pseudotime(merged_adata, root_key=merged_adata.uns["iroot"], end_key=merged_adata.uns["iend"])
Above this step, i will get root_cells, end_points and velocity_pseudotime attribution in merged_adata.obs.
Then i run this function scv.tl.paga and set root and end using root_cells and end_points in the merged_adata.obs. But i always get the start cell-state (naive) as end. As.follow:
scv.tl.paga(merged_adata, groups='Final_anno', root_key="root_cells", end_key="end_points")
How could i acquire a page graph as my setting (root and end) ?
Phillip
Best wishes for you!
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