SOFTWARE

High-density 3D morphometric datasets for frogs and salamanders, and accompanying code, are available on GitHub

EMMLi: Evaluating Modularity with Maximum Likelihood

The EMMLi package is available on CRAN, along with example test files from A. Goswami and J.A. Finarelli. 2016. EMMLi: A maximum likelihood approach to the analysis of modularity. Evolution, in press (available online).  Raw macaque landmark data used to generate the example test files are also available below and on Dryad.   

 

Paleomorph: tools for morphometric analysis of paleontological data

The Paleomorph package is available on CRAN. This package provides useful tools for conducting geometric morphometric analysis with missing data, as is common in fossil datasets, including mirroring symmetrical traits, Procrustes analysis with and without scaling and generation of traditional and vector covariances and correlations, all with skipping missing landmarks (rather than imputing).   


Modularity Package in Mathematica 

Modularity Package v1.0 , to accompany Goswami and Polly 2010User guide for Modularity Package

DATA

 

Published/sample datasets:

 

High-density 3D morphometric datasets for frogs and salamanders, and accompanying code, are available on GitHub

Marmota mandibular landmarks (2D) from A. Goswami and P.D. Polly. 2010. Methods for studying morphological integration and modularity. In Quantitative Paleontology (J. Alroy and G. Hunt, eds.). Paleontological Society Special Publications, pp 213-243

 

Macaca fuscata cranial landmarks (3D) from A. Goswami and P.D. Polly. 2010. Methods for studying morphological integration and modularity. In Quantitative Paleontology (J. Alroy and G. Hunt, eds.). Paleontological Society Special Publications, pp 213-243; and A. Goswami and J.A. Finarelli. 2016. EMMLi: A maximum likelihood approach to the analysis of modularity. Evolution, in press (available online)

 

Carnivoran, including pinniped, cranial landmarks (3D) from K.E. Jones, J. B. Smaers, and A. Goswami. Impact of the Terrestrial-Aquatic Transition on Disparity and Rates of Evolution in the Carnivoran Skull. BMC Evolutionary Biology, 15 (1): 8.