hi Elin,

On Mon, May 27, 2013 at 10:31 PM, Elin Videvall <Elin.Videvall@biol.lu.se>wrote:
>
>
> If you have one uninfected individual sampled during three time points,
> would you make use of all three transcriptomes in the uninfected group, or
> would you discard two of them, considering they are from the same
> individual? What do you think is the best practice?
>

This depends if these 3 samples are close to each other (helping to lower
dispersion estimates) or far apart (which would drive up dispersion
estimates).  It might be useful to look at heatmaps and PCA plots of the
data as in sections 8.2 and 8.3 of the vignette.

Mike

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