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lamho86 / phylolm

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Prediction accounting for phylogenetic #70

Open MorceletL opened 2 months ago

MorceletL commented 2 months ago

Hello everyone,

I'm new to phylolm, but I see so much potential to your work. Indeed, it can become a very powerfull tool to conduct analyse in ecology accounting for phylogenetics, and not genus or order as a random effect !

I've been trying to do trait imputation based on a model phylolm. However, I can't find any information on how phylogenetic signal is accounted while doing prediction. My goal is to impute trait values for species with missing information while accounting for their phylogeny. Using the function predict() I don't know the variance-covariance matrix is accounted for or not.

I hope you can understand my question, and help me to solve this issue ! Thanks Lucile

cecileane commented 2 months ago

For trait imputation, you might want to look at Rphylopars instead, which also uses the fast algorithm developed for phylolm. Rphylopars uses a correlation framework rather than regression, so it's great to use correlation between traits --in addition to phylogenetic correlation between species-- to do trait imputation.