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@jackbibby1 ...I have been trying to dun your pseudotime codes in my own data. The data entered as per the instruction, but when I run the plot command this is the figure that comes
plot_dimred(mo…
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Dear Palantir developers, @ManuSetty
Palantir is an excellent tool for trajectory analysis, but I have a problem now.
My input is a published dataset containing Oligodendrocytes lineage cells(Cell …
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Dear Authors,
I used tradeSeq for my monocle3 object to find DEG of various lineage along trajectory. Output provides gene names, waldStat, pvalue and meanLogFC.
This is my first time doing tr…
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It would be great to extend the workflow with pseudotime analysis. Several customers would like to see this kind of analysis, see velocity or trajectory inference.
ktrns updated
2 years ago
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Hi,
It would be great if you could provide an implementation of the plot_pseudotime_heatmap function in moncole-3-alpha with this version ?
Thanks
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I recently downloaded the demo Harmony notebook just to see how it worked. I noticed that after running the `palantir.plot.plot_palantir_results()`, while the pseudotime looked correct the entropy gra…
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In the part 13.4.4 Pseudotime construction, there is a paragraph: The differentiation hierarchy in bone marrow is well understood. However, it is only know that the developmental process starts in the…
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Hello, I have problem to understand properly the scale of the pseudotime heatmap going from 2 to -2,
after selecting genes with a menlogFC >=1 and p.adj
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Dear all,
I tried to plot genes that changed expression over pseudotime and I got a plot that all dots are on the x-axis, the plot and code are as follow:
`plot_genes_in_pseudotime(cds_order_1["CSN3…