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Hi
thank you for the good package.
my problem is I can't get the text in plot_pseudotime_heatmap.
there are no error messages and plotting very well.
but, But the text is replaced by a square.
…
gdk43 updated
4 years ago
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Hello,
I have used "plot_pseudotime_heatmap" to find genes that change as a function of pseudotime. Because I have several genes (around 1000 genes) on the heatmap, the name of the genes that clust…
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I'm finally getting around to writing the trajectory chapter in the OSCA book (see [here](https://osca.bioconductor.org) for its current state). Given that TSCAN is one of the Bioconductor packages fo…
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Hi all,
Thanks for your work on this software. I was hoping you could clear up a question with counts, and help me troubleshoot a problem with evaluateK.
When following the Seurat3 SCTransform p…
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The order_cells function throws an error like below, no matter which node I click on the interactive graphical user interface.
>cds = order_cells(cds)
Listening on http://127.0.0.1:7029
Error …
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- [x] Comment on the relationship between the entropy and library size.
- [x] Demonstrate how to use `rowSubset()` for HVG selection.
- [x] Add a "comparing clustering section", with `clusterRand` a…
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Hello,
I am running an analysis and would like to visualize some variables/features that are currently stored in my colData through pseudotime using plot_genes_in_pseudotime(). These variables of i…
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I'm trying to plot gene expression using
```
from sklearn.svm import SVR
model = cr.ul.models.SKLearnModel(adata_oligo_wt, model=SVR)
cr.pl.gene_trends(adata_oligo_wt, model=model, data_key='X',…
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Hi
Tradeseq is a really interesting package and I have found it easy to get up and running using your tutorial - thank you.
I am interested in how to effectively use the output of some of the te…
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If I am interpreting correctly, `predictSmooth` returns a matrix with y-hat values ~for each cell~ along the pseudotime grid with lineages as concurrent sets of columns, and genes on rows. It would be…