Superimposition analysis

While most all programs for landmark based geometric morphometerics contain a superimposition step, the programs listed below give the superimpostion as their main result. See also the tps series of programs and the comprehensive programs.

The shapes package is a set of procedures for statistical shape analysis in R. Includes functions for Bookstein baseline registration for 2D data, GPA for 2 and higher dimensional data, plotting of shapes, and other functions. Index file listing the main functions. By Ian Dryden. Version 1.0-7.

MOG allows one to visualize the steps of a Procrustean superposition, namely 1. translation, 2. scaling to unit size, and 3. rotation. Different groups appear in different colors. MOG generates files containing the aligned specimens (file_ALIGNED.txt), the centroid sizes (file_CS.txt), the weight matrix (partial warps, uniform and non-uniform components) (file_PW.txt), and a file containing both centroid sizes and partial warps (file_PW_CS.txt). MOG also allows to produce the partial warps of additional objects relative to the general consensus computed without them. In that case, the size and shape variables of the external objects are saved in separate, additional files (file_PW_unknown.txt, file_CS_unknown.txt, file_PW_CS_unknown.txt). Files produced by MOG are in a format exploitable by the BAC (principal component analysis, or "relative warps" in this case) and/or the PAD (discriminant analysis, option "INCLUIDO") programs. In addition, MOG may show the centroid size variation among groups (if there are different groups). For Windows and Linux. Link. Developed by Jean-Pierre Dujardin.

Superimposition and linear discriminant functions. DOS. Performs least-squares and resistant-fit superimposition of landmarks. Can average shapes and assign configurations to populations using linear discriminant functions. By Joe Kunkel (joe@bio.umass.edu), Version 2.0.

Procrustes bin

Procrustes hqx