Indiana University Bloomington
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G562 Geometric Morphometrics

P. David Polly
Department of Geological Sciences
Indiana University
1001 E. 10th Street
Bloomington, IN 47405 USA
http://www.indiana.edu/~geosci

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Geometric Morphometrics is the analysis of shape using Cartesian geometric coordinates rather than linear, areal, or volumetric variables. Geometric morphometric methods (GMM) include 2D and 3D points representing landmarks, curves, outlines, or surfaces. This course is a practical, applied introduction to GMM. Students learn to collect, analyze, and interpret geometric morphometric data. Shape theory and methods are covered, including Procrustes superimposition and its statistical implications, analysis of curves and outlines, and Monte Carlo modeling of shape.

[Course Syllabus 2016]


Lecture 1 - Introduction to Geometric Morphometrics

Lecture 1 - Introduction to Mathematica

Overview of Wolfram's Mathematica.
[Download slides] [Assignment 1]



Mathematica Morphometrics Package

Download Geometric Morphometrics for Mathematica and other Mathematica packages here

Handouts

Mathematica Quick Guide
Manipulating Data In Mathematica
How to collect landmarks from photos
Collecting 3D landmarks with MicroScribe
Collecting outline points in ImageJ

Sample Data Files

Associated data from Caumul and Polly, 2005 [Excel format]
Onyx turtle images for outlines
Marmot molar TPS file
Mammal tree [Newick format]

Morphometrics Resources

Jim Rohlf's morphometrics site
MorphoJ software from Klingenberg
GMM tools for Mathematica and R
EVAN toolbox

Online Morphometric, Image, and Scan Data

Digital Morphology Site (DigiMorph)
MorphoBrowser
Virtual Zooarchaeology of the Arctic

IU Natural History Collections

IU Paleontology Collection
Adams Zooarchaeological Collection
Glenn Black Lab of Archaeology
IU Herbarium

IU Paleo Collection on
FaceBook
IU PaleoCollection on FB

Online Phylogenetic Data

CladeStore
TreeBase
MorphoBank
NCBI Taxonomy
Molecular Data from Extinct Species

PBDB Course 2013