Supplemental Materials
|
Author |
Title |
Supplemental Files |
|
Steve C. Wang |
Principles of Statistical Inference: Likelihood and the Bayesian Paradigm |
|
|
Michal Kowalewski and Phil Novack-Gottshall |
Resampling Methods in Paleontology |
|
|
John Alroy |
Fair Sampling of Taxonomic Richness and Unbiased Estimation of Origination and Extinction Rates |
R code for shareholder quorum subsampling and rarefaction |
|
Estimating Rates and Probabilities of Origination and Extinction Using Taxonomic Occurrence Data: Capture-Mark-Recapture (CMR) Approaches |
Using MARK to analyze paleontological data |
|
|
Tom Olszewski |
Diversity Partitioning Using Shannon’s Entropy and its Relationship to Rarefaction |
|
|
S. Kathleen Lyons and Felisa A. Smith |
Using a Macroecological Approach to Study Geographic Range, Abundance and Body Size in the Fossil Record |
|
|
Peter D. Roopnarine |
Networks, Extinction and Paleocommunity Food Webs |
|
|
Mark Webster and H. David Sheets |
A Practical Introduction to Landmark-based Geometric Morphometrics |
Data files for single species: Data files for two species: Data files for four species: |
|
Peter J. Wagner and Jonathan A. Marcot |
Probabilistic Phylogenetic Inference in the Fossil Record: Current and Future Applications |
|
|
Anjali Goswami and P. David Polly |
Methods for Studying Morphological Integration and Modularity |
Goswami and Polly Modularity 1.0.m |
|
Gene Hunt and Matthew T. Carrano |
Models and Methods for Analyzing Phenotypic Evolution in Lineages and Clades |
Supplement: likelihood calculations and R objects |
|
Brute-force Biochronology: Sequencing Paleobiologic First- and Last-Appearance Events by Trial and Error |
||
|
Charles R. Marshall |
Using Confidence Intervals to Quantify the Uncertainty in the End-points of Stratigraphic Ranges |
Software Resources for Quantitative Paleobiology
General Purpose (Free)
|
PLATFORM |
URL |
NOTES |
|---|---|---|
|
R |
Particularly strong for statistical methods. Extendible with user-contributed packages. |
|
|
Octave |
Good for numerical computing; similar in capabilities to Matlab. |
General Purpose (Commercial)
|
PLATFORM |
URL |
NOTES |
|---|---|---|
|
Matlab |
Good for numerical computing. |
|
|
Mathematica |
Particularly strong for symbolic math. |
Specialized Software (Free)
|
SITE |
URL |
NOTES |
|---|---|---|
|
SUNY Stony Brook Morphometrics |
Compilation of resources for morphometrics. |
|
|
IMP |
Integrated Morphometrics Package suite of programs. |
|
|
Conop |
Constrained optimization for biochronology. |
|
|
MARK |
Capture-Mark-Recapture software. See Liow and Nichols chapter supplement for instructions. |