Morphometrics - Statistics - Programming
Imaging Software:
Random Number Generators:
Geometric Morphometrics Software:
Other Geometric Morphometrics Software:
3D Morphological Analysis / Micro-CT Scanning:
Online Geometric Morphometrics Books:
Online Statistics and Quantitative Analysis Books:
Statistics:
R Links, Tutorials, and Books:
Population Dynamics & Simulation Software:
- FIJI - Version of ImageJ with preloaded plugins
- Base ImageJ - Software for processing and editing images
- StereoMorph - R package to digitize landmarks and generate 3D images from multiple 2D pictures
- WinDig - Software for digitizing points on electronic files
Random Number Generators:
- Random.org - Program for generating random numbers
Geometric Morphometrics Software:
- Morphometrics at Stony Brook - Comprehensive guide to geometric morphometrics software. For individual programs, I recommend the tps series developed by Jim Rohlf at Stony Brook. See:
- tpsDIG2 - Program to digitize landmarks on digital images
- tpsRelw - Program that performs procrustes superimposition and principal component analysis (PCA) of landmark data
- tpsRegr - Program that performs procrustes superimposition and regression analysis of landmark data
- tpsSplin - Program to visually compare pairs of specimens using deformation grids (thin-plate spline)
- tpsPLS - Program that performs a partial least-squares analysis to explore the covariance between a set of variables and variation in shape or between two shapes
- tpsUtil - Utility program for tps software
Other Geometric Morphometrics Software:
- GeoMorph - R package for geometric morphometrics
- Geometric Morphometrics Tools Package
- IMP-Integrated Morphometrics Software
- Morpheus et al.
- MorphoJ- Geometric Morphometrics software
- Morphologika
- SlicerMorph Project
3D Morphological Analysis / Micro-CT Scanning:
Online Geometric Morphometrics Books:
- Guia Practica de Morfometria Geometrica - ResearchGate link to PDF guide on Geometric Morphometrics in Spanish.
Online Statistics and Quantitative Analysis Books:
- Analisis Multivariado para Datos Biologicos - Teoria y Su Aplicacion Utilizando R - ResearchGate link to PDF book on Multivariate Analysis in Spanish.
Statistics:
- jamovi - A free, open-source “3rd generation” statistical spreadsheet
- Past- Free Statistical Software Program
- VassarStats-Wonderful online statistics package
- www.statisticshowto.com/benjamini-hochberg-procedure/ - Benjamini-Hochberg Procedure for correcting for multiple tests
- Statistics Kingdom - Website for basic statistical analysis and graphing. Runs analyses online.
R Links, Tutorials, and Books:
- The R Project for Statistical Computing
- R Studio- Interface for using R.
- R Tutorial- An Online R Tutorial.
- Learning R- PDF of book by Ricard Cotton.
- Modern Statistics with R. Online book by Mans Thulin.
- Modern Statistics for Modern Biology. Online book on Statistics in R and Bioconductor by Susan Holmes and Wolfgang Huber.
- R for Data Science- Online version of book by Wickham & Grolemund.
- R Graphics Cookbook- Online version of book by Winston Chang.
- R Markdown- R Markdown: The Definitive Guide by Yihui Xie, J. J. Allaire, Garrett Grolemund.
- Beyond Multiple Linear Regression. Applied Generalized Linear Models and Multilevel Models in R. Online book by Paul Roback and Julie Legler.
Population Dynamics & Simulation Software:
- Populus- Simluations of Population Biology.