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** If this is a question and not a bug report or enhancement request, please post to our google group at https://groups.google.com/forum/#!forum/monocle-3-users**
**Describe the bug**
Psuedotime e…
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I’m running #tradeseq on approx 15k cells on remote clusters with over 72 GB of and more than 12 cores, It seems fitgam step is running over for 24 hours
The computations seem to be running after t…
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Proposal to implement to extract a cell_data_set from a Seurat object. Can submit a PR if needed.
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Hi,
I have observed two issues with order_cells function in Monocle 3.
I run the default Monocle 3 pipeline up until "cluster_cells".
I then import my UMAP coordinates and clustering results int…
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After trajectory analysis, I have found that both `fit_models` and `plot_genes_in_pseudotime` return an identical error:
> Error in purrr::map(.f = purrr::possibly(extract_model_status_helper, :
…
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Hi Volker! I have two questions/observations I wanted to share with you:
1. increasing the `node_size` scale covers the arrows, see Fig 1 and 2 below. Would it be possible to shorten the arrow leng…
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I have installed the latest release of scVelo (version 0.1.26) and I followed the tutorials to computed pseudotime, after I ran scv.tl.velocity_pseudotime(adata), an error pop up as the following:
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Hello,
I am trying to use the ```plotGeneCount``` function but the first argument is a Slingshot object. Is there a way to use this plotting function downstream of Monocle? I tried ```cds@phenoData…
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Hi,
I am trying to run the fitGAM function on SlingshotDataSet and I keep getting the error:
![Screen Shot 2020-05-29 at 10 19 58 AM](https://user-images.githubusercontent.com/65964066/83276286…
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@ctrapnell
Hi, thank you for your team's wonderful work.
I imported Seurat3 integrated data to monocle to do pseudotime analysis.But the integrated normalized data can only be used to do pseudotime…