Hi I was trying to extract up and down regulated genes from the edgeR results. I was able to extract exact number of genes given in the EdgeR report only for upregulated genes. I was using the following criteria to filter the results table.
Adjusted p value <= 0.05 and
Log2fold change >= 0.58 or <=0.35
I got higher number of genes than the EdgeR results. Can you please suggest me how to extract down down regulated genes using a cut off value of fold change of -1.5 (Equivalent to log2Fold change of 0.35 respectively )
Is there any other way that I can extract up and down regulated gene lists from EdgeR?