Question: (Closed) Mapping clonotypes on UMAP
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gravatar for ecl75
5 months ago by
ecl750
ecl750 wrote:

Hello! I have identified in my seurat object the top 10 clonotypes based on frequency. I used this code to find them

top10_clonotype <- table(Object$clonotype_id)
top10_clonotype <- as.data.frame(top10_clonotype)
top10_clonotype <- slice_max(top10_clonotype, order_by = top10$Freq, n=11)

I would like to then highlight them on my umap. I ran the lineDimPlot(AD007, reduction = "umap", cells.highlight=top10). The number one clonotype frequency came up 22 times yet on the umap there was just one dot for it. Any suggestions? Please and thanks!

seurat rna-seq R 10x • 199 views
ADD COMMENTlink written 5 months ago by ecl750

Hello ecl75!

Questions similar to yours can already be found at:

We have closed your question to allow us to keep similar content in the same thread.

If you disagree with this please tell us why in a reply below. We'll be happy to talk about it.

Cheers!

ADD REPLYlink written 5 months ago by ATpoint46k
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