Hey everyone, I have integrated my dataset with CD8 dataset Integrative mapping of human CD8+ T cells in inflammation and cancer | Nature Methods, and it integration looks good.
I was interested in performing pseudobulk analysis. Would it be possible?
I saw another post discussing something similar on the same line, but i did not get the conclusion.
I ran decoupler after integration, but it looks like the batch effect is evident on the PCA plot.
How to go about it?
Blue cells are the ones that were integrated.
Thanks in Advance !