SingleR Label.Ont
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@7bbacdad
Last seen 9 months ago
Canada

Hi, I am new in using SingleR to annotate Visium RNA Seq data on Human Skin and wondering if there is a way to convert label.ont (i.e. CL:0000840) into gene name. Can you please advise? Thanks.

Cheers, Saeed

Code should be placed in three backticks as shown below


# include your problematic code here with any corresponding output 
# please also include the results of running the following in an R session 

sessionInfo( )
SingleR • 20k views
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good! i like it!

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ATpoint ★ 4.2k
@atpoint-13662
Last seen 23 hours ago
Germany

SingleR returns per-cell or per-cluster labels, not genes. The CL:0000840 is a myeloid label, see https://bioconductor.org/packages/release/data/experiment/vignettes/celldex/inst/doc/userguide.html to get the HPCA table that allows translation from ont to actual human-readable label.

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Thanks so much!

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