What Is The Best Method To Find Orthologous Genes Of A Species?
As it has been said, there are many options for orthology prediction. The truth is that most of them exist because of a specific reason. In other words, it is difficult to provide an absolute answer to the question "Which is the best one?". Nevertheless, the following reflexion helps me to decide what works better for each of my projects: Orthology and paralogy, as originally defined by Fitch, are
Deseq, Edger And Cuffdiff - Different Result
Hi, I performed differential expression analysis with DESeq, edgeR and cuffdiff on my data. Surprisingly, there are differences between DESeq, edgeR and cuffdiff. Here's a venn diagram of my results. I've 1001 DE gene with DESeq, 1447 DE gene with edgeR and "only" 149 DE gene with cuffdiff. Anyone can explain why cuffdiff is so stringent ? Thanks,
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