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Old 11-08-2015, 11:28 PM   #8
Devon Ryan
Location: Freiburg, Germany

Join Date: Jul 2011
Posts: 3,480

If "replica" is doing anything then I presume that it can have a time-dependent effect. This is known as an "interaction" and is the "replica:hour" part of your model. Not including that in the reduced model says, "include any genes that might change due to this," which I presume you want...though without knowing the actual context that's just an assumption. If you just want genes that change as a function of time, ignoring any "replica"-dependent changes, then go ahead and keep "replica:hours" in you reduced model.

BTW, I hope "replica" doesn't denote the biological replicates
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