Question: (Closed) Mapping clonotypes on UMAP
0
gravatar for ecl75
8 weeks 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 • 128 views
ADD COMMENTlink written 8 weeks 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.

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Cheers!

ADD REPLYlink written 8 weeks ago by ATpoint42k
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