There is also an implementation of this method in two functions in ape, see:
?pic.ortho
?varCompPhylip
There are examples with simulated data in both help pages. The second
function requires PHYLIP (similarly to Rphylip) .
Best,
Emmanuel
Le 04/08/2017 à 14:36, Joe Felsenstein a écrit :
The
There is also my C program Contrast, which implements a method from a
2008 paper I wrote:
Felsenstein, J. 2008. Comparative methods with sampling error and
within-species variation: contrasts revisited and revised. American
Naturalist 171: 713-725.
This estimates the within-species covariances
The original paper is here, with Matlab code. Others can tell you where
this is in R.
Ives, A. R., P. E. Midford, and T. Garland, Jr. 2007. Within-species
variation and measurement error in phylogenetic comparative methods.
Systematic Biology 56:252–270.
Cheers,
Ted
On Wed, Aug 2, 2017 at 7:50
Dear list users,
I'm interested in testing for phylogenetic signal in a trait of parasites:
the number of host species a parasite infects. I have a phylogeny for the
parasites and I have tabulated the number of host species each parasite
infects from the literature. However, some parasites are wel
