I have two distinct branches in my UMAP and I want to graph the expression of two genes (each of which mark one branch) on the same pseudotime expression graph. This was capable using Monocle2, as shown below through the "plot_genes_branched_pseudotime" function.
However, I cannot figure out how to generate a similar graph in Monocle3. There is a "plotgenes pseudotime" command, but it only allows for one gene to be displayed on each graph, as shown below.
pabloatria18
commented
3 years ago
Hi,
I have two distinct branches in my UMAP and I want to graph the expression of two genes (each of which mark one branch) on the same pseudotime expression graph. This was capable using Monocle2, as shown below through the "plot_genes_branched_pseudotime" function.
However, I cannot figure out how to generate a similar graph in Monocle3. There is a "plotgenes pseudotime" command, but it only allows for one gene to be displayed on each graph, as shown below.