Help needed! Analyse spectral data of wild fruits

[adriweid]

Hello!

For our project we wanted to know how fruit color is changing when infested by an invasive insect. We measured reflectance spectra of about 150 fruits multiple times, using a black comet spectrometer, and we also measured the incoming radiation without a fruit. However, we have some problems to look at our data "through a bird's eye" with the pavo package.
So far, I divided the fruit spectra by the by incoming spec (I hope this was right) using the pavo package, plotting the mean reflectance for 10 infested and 10 control berries.

My questions are now: I am unsure how to correct for the incoming radiation, and then how to calculate bootstrapped colour distances and tetrahedral colourspace modelled using the visual phenotype of the blue tit.

Adrian (I also sent an email)