Making box plot with pvalue for a set of genes across clusters or condition using seurat RNA slot count data
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9 months ago
sam ▴ 30


I am working with single cell data analysis and using seurat. For a set of interested genes, i wanted to see if the expression of these genes significant between the clusters and wanted to show p-value this in a box plot.

I saw a similar post (Adding p value to Vlnplot in Seurat), but as i understand i see the significance is based on the number of cells rather than the gene expression. I am also confused, how should i normalize the count data for making such a box plot?

Instead, is it advisable to make a similar box plot with statistical test using count data from RNA slot for individual cluster.

Any suggestion is appreciated.


seurat boxplot scrna • 677 views

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