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- [✔] I have checked that this issue has not already been reported.
- [✔ ] I have confirmed this bug exists on the latest version of scanpy.
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In the Monocle 3 documentation under the "Order cells in pseudotime" section it says:
`Note that we could easily do this on a per-partition basis by first grouping the cells by partition using the…
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I would like to plot genes that change as a function of pseudotime from the trajectory obtained from Monocle 3. It works fine with Monocle 2 with tSNE and DDRTree reduction. But on applying the functi…
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hi!Thank you for developing the wonderful package!!when I run the example code `grid.arrange(grobs = trajectory_plots, layout_matrix=matrix(c(1:2), 1, 2))`
Error in `geom_point()`:
! Problem while c…
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Dear All,
I am stressed with doing pseudotime analysis. I had performed scaling and dimensionality reduction on the filter_matirx data. I would like to further process the pseudotime analysis with on…
cli35 updated
3 years ago
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Hi Dongyuan,
Thanks for sharing the work. I have a question about using the model: can I first train model on one dataset and learn the relation between cell type and omics parameters; then I have …
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Hi Team URD! I was super impressed with your zebrafish paper, so I am trying out your package. I've hit a snag. It says:
```
> library(magrittr)
> library(URD)
> my_urd = readRDS("path/to/unzipp…
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Hello
I would like to plot multiple genes in just one graph in plot_genes_in_pseudotime, and not one graph per gene.
Is there any way of doing this?
Thank you
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In monocle V3 , after function order(), the Pesudotime will include a infinite numeric. However, I filter the infinite numeric, but when I run the plot_pseudotime_heatmap function, always report an er…
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It appears when I run the RunSlingshot() function using my own data:
1: No shared levels found between `names(values)` of the manual scale and the data's fill values.
2: No shared levels found betw…