Question: How can I show certain gene's expression in clusters by sc3
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gravatar for qq1493438060
15 months ago by
qq14934380600 wrote:

I'm a college student and use sc3 for my graduation thesis. I have got 3 clusters and the expression matrix. I want so show certain gene`s expression in heatmap besides marker genes and DE genes. How can I do it?Thanks!

sc3 • 241 views
ADD COMMENTlink modified 15 months ago by Vladimir Kiselev150 • written 15 months ago by qq14934380600
Answer: How can I show certain gene's expression in clusters by sc3
0
gravatar for Vladimir Kiselev
15 months ago by
Sanger Institute, Cambridge, UK
Vladimir Kiselev150 wrote:

I don't think this is related to SC3. You can use the pheatmap package to visualise any genes you like. The heatmap will look similar to SC3, since it's also using pheatmap.

ADD COMMENTlink written 15 months ago by Vladimir Kiselev150

Thank you for your answer!This is the first time for me to use R for bioinformatics. I will learn how to use pheatmap package.

I just want to show certain genes' expression in clusters provided by sc3 besides mark genes and DE genes. How can I find these rows of SingleCellExperiment and show them on heatmap by pheatmap or any other way?(The rowname is gene'name) 

 

 

ADD REPLYlink modified 15 months ago • written 15 months ago by qq14934380600
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