Hello, Currenty, I call
glmTreat method as following:
tr <- glmTreat(fit, contrast=B.LvsP, coef = 2, lfc=log2(1.5)) topTags(tr)
I discovered this paper and In the "Differential gene and microRNA expression" section they described that the differentially expressed genes (DEGs) were filtered using the glmTreat function in edgeR, which tests for significant differences relative to a set log2-fold change (logFC) cutoff of 0.5. Results were then filtered by a false discovery rate (FDR) of 0.05.
How did they performed the above task?
Thank you in advance.