Nebulosa

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plot_density(data_combined, "EPCAM") Error in as.vector(x, "character") : cannot coerce type 'environment' to vector of type 'character'

Noralii

Plot density issue

2

Hi, I tried to use plot_density function but I didn't get any plot or error. Code: `p4 p4 + plot_layout(ncol = 1) > SeuOs An object of class Seurat 31061...

apal6

plot_density not working

15

I've used plot_density several times but today I ran into this error and couldn't find more details about it. Is it possible related to the recent Seurat update? > library(Nebulosa)...

ftencaten

Why does the highest expression plotted with most negative density? Disagreement between FeaturePlot vs plot_density

7

Hi there, Thanks for a great tool. I plot the joint density of a vector of genes that were scored using AddModuleScore. When I plotted this score for each cell...

denvercal1234GitHub

Introduce split.by?

1

Hi, Thanks for this very handy tool for cluster exploration. It would be most useful if a "split.by" function could be added to Nebulosa, with behaviour similar to Seurat's split.by...

kmshort

I am opening this issue as a notification because `Nebulosa` is listed [here](https://cran.r-project.org/web/packages/Seurat/index.html) as a package that relies (depends/imports/suggests) on Seurat. As you may know, we recently released Seurat v5...

saketkc

What is the optimal threshold value of joint density?

3

Dear Nebulosa group: Thanks for your wonderful work in single cell visualization! I've found that for well expressed markers, there's great performance. But for some obviously wrong combinations, it will...

yuGithuuub

Dear Nebulosa developers, Nice tool. I work with Nebulosa_1.8.0. One suggestion for improvement: If you run the function plot_density on a gene that has only zero counts, it currently throws...

aghr

A few of advices for this package

1

Hi , Thanks to develop the great tools to visulize the scRNA data. I hope the plot_density function can add the split_by parameter in it to display different group data....

honghh2018

Hello, Thanks so much for publishing this tool, very cool way to look at gene expression! Is there a way to look at metadata instead? I have a large integrated...

cgraham13