22 Aug
2013
22 Aug
'13
1:04 p.m.
I am wondering why Cuffdiff suddenly gives many more significant DE genes?
Cuffdiff was recently updated to version 2.1.0; this update likely explains the different results that you see.
I have rerun several analysis, also with more samples in each group, all give much more significant genes. Why?
More samples = more power to accurately estimate expression levels = more DE genes.
Also, will replicate information soon be included in output files?
Replicate data will be available when we next update our server. This should occur in about 3 weeks. Best, J.