Hi, I used runCluster, processingCluster, runFastPCA, runUMAP, runTSNE, buildTree successfully. I can visualize the clusters with plot2D.
When I run:
cyt<-defRootCells(cyt, root.cells=c(13,16,21))
cyt<-runPseudotime(cyt, verbose=TRUE, dim.type="umap", dim.use=seq_len(2))
I get the following error message:
Error in distances(g, v = root.cells) :
At core/graph/iterators.c:762 : Cannot create iterator, invalid vertex id, Invalid vertex id
The defRootCells function worked, since the clusters 13, 16, 21 are identified with a "1" in "is.root.cells" from meta.data.
Any idea how to solve this issue?
I used the exact same steps in a previous analysis, on another laptop, and it worked perfectly well.
ytdai
commented
1 year ago
Hi, I used runCluster, processingCluster, runFastPCA, runUMAP, runTSNE, buildTree successfully. I can visualize the clusters with plot2D.
When I run: cyt<-defRootCells(cyt, root.cells=c(13,16,21)) cyt<-runPseudotime(cyt, verbose=TRUE, dim.type="umap", dim.use=seq_len(2))
I get the following error message: Error in distances(g, v = root.cells) : At core/graph/iterators.c:762 : Cannot create iterator, invalid vertex id, Invalid vertex id
The defRootCells function worked, since the clusters 13, 16, 21 are identified with a "1" in "is.root.cells" from meta.data.
Any idea how to solve this issue?
I used the exact same steps in a previous analysis, on another laptop, and it worked perfectly well.
Thank you so much in advance!