Question: (Closed) Mapping clonotypes on UMAP
gravatar for ecl75
8 weeks ago by
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$clonotype_id)
top10_clonotype <-
top10_clonotype <- slice_max(top10_clonotype, order_by = top10$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.

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


ADD REPLYlink written 8 weeks ago by ATpoint42k
Please log in to add an answer.
The thread is closed. No new answers may be added.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2158 users visited in the last hour