This function conducting a multiple matrix regression (partial Mantel test) and uses Mantel (1967) permutations to test the significance of the model and individual coefficients. It also returns the residual and predicted matrices.
multi.mantel(Y, X, nperm=1000)An object of class "multi.mantel" consisting of the following elements:
multiple R-squared.
model coefficients, including intercept.
t-statistics for model coefficients.
F-statistic for the overall model.
vector of probabilities, based on permutations, for tstatistic.
probability of F, based on Mantel permutations.
matrix of residuals.
matrix of predicted values.
the number of permutations used.
single "dependent" square matrix. Can be either a symmetric matrix of class "matrix" or a distance matrix of class "dist".
a single independent matrix or multiple independent matrices in a list. As with Y can be a object of class "matrix" or class "dist", or a list of such objects.
number of Mantel permutations to be used to compute a P-value of the test.
Liam Revell liam.revell@umb.edu
Printing the object to screen will result in a summary of the analysis similar to summary.lm, but with p-values derived from Mantel permutations.
Methods residuals and fitted can be used to return residual and fitted matrices, respectively.
Mantel, N. (1967) The detection of disease clustering and a generalized regression approach. Cancer Research, 27, 209-220.
Revell, L. J. (2024) phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things). PeerJ, 12, e16505.