How can I show certain gene's expression in clusters by sc3
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@qq1493438060-15919
Last seen 5.5 years ago

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!

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@vladimir-kiselev-9342
Last seen 5.0 years ago
Sanger Institute, Cambridge, UK

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.

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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) 

 

 

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