These programs provide various types of statistical analyses using partial warp scores as shape variables and/or expressing the results of a morphometric analysis as a shape deformation. See also the comprehensive programs that also include these computations.
Note: all of the software in the tps---- series listed below are freely available for use in research and teaching.
|tpsSmallw32||Test for "small" variation
in shape. Windows. Use
to test whether the variation in shape among a set of specimens is too
large and thus statistical methods based on the tangent space approximation
(e.g., thin-plate spline methods) cannot be used. The program can process both
2D and 3D data files. Output files include consensus and aligned specimens.
tpssmallw64 requires 64 bit versions of Windows. The 32 bit version is compatible with Windows XP to 10.
By F. James Rohlf. Version 1.34.
The old Version 1.03 (for Windows 3.1) is still available: [tpsSmall v1.03]:)
Fit and visualize thin-plate splines
on trees. Windows. Performs a least-squares
orthogonal generalized Procrustes analysis to obtain a reference and
then estimates the splines for each group (internal node) on a tree.
(e.g., WPGMA and UPGMA trees) and additive trees (using squared change
parsimony to estimate the shapes of the HTUs) are supported. The estimated
shapes can be visualized with estimated images in the background (see
the tpsSuper program). The file expands into a Windows setup program
and associated files. By F. James Rohlf. Version 1.23. File containing HTU
coordinates and HTU images to demo that feature.
The 32 bit version is compatible with Windows XP to 10.
The older and more
limited 16 bit Windows version is still available.
The older and more limited 16 bit Windows version is still available.
|tpsRegr32||Multivariate multiple regression
of shape onto independent variables. Windows.
performs a multivariate multiple regression of
shape (as captured by partial warp scores and the uniform shape component)
onto one or more independent variables. By appropriate setting up of independent
variables, this program can perform various types of MANOVA and MANCOVA.
Can be used to study allometry. By F. James Rohlf. Version 1.45.
The 32 bit version is compatible with Windows XP to 10.
The old 16 bit version is still available but is more limited. The older DOS version is also available but does not support the new features of the Windows versions: [DOS version] [DOS DPMI version] DOS versions require the [BGI] Graphics drivers.
|tpsSplin||Thin-plate spline. Windows. Program to compare pairs of specimens by displaying a D'arcy Thompson style transformation grid based on a thin-plate spline. Several options are given for sliding semilandmarks. The tpssplnw.exe file expands into a Windows setup program that will be run automatically. The 32 bit version is compatible with Windows XP to 10. By F. James Rohlf. Version 1.22 This program replaces the [TPSPLINE] program (a DOS program with a limit of 40 landmarks and required the [BGI] Graphics drivers) and its DPMI version [TPSPLINEP] (with a limit of 60 landmarks). Readme.||1/24/2016|
Relative warps analysis. Windows. Performs a relative warp analysis. This corresponds to a principal components analysis of variation in a sample (relative to bending energy if the alpha parameter is not equal to zero). Displays a plot of relative warp scores and a "visualization window" that displays the estimated shape for arbitrary points in the ordination. Also displays partial warp scores and their visualizations. Allows sliding of semilandmark points along curves to achieve a better fit (minimum bending energy or Procrustes distance). Subsets of landmarks can be selected. Plots ln(Var of PW) vs. ln(BE) for studies of integration. Version 1.70. By F. James Rohlf. The 32 bit version is compatible with Windows XP to 10.
The old Version 1.11 for Windows 3.1 is still available: [tpsRelw v1.11] The DOS version is also still available but it does not support many of the new features in the Windows version: [TPSRW]. The DOS version requires the [BGI] Graphics drivers. 10/17/94. [TPSRWP] The DOS DPMI version of the TPSRW program whic can process larger datasets. 10/17/94. Readme file.
|tpsPLS||Partial least-squares analysis for shapes. Windows. Used to explore the covariance between a set of variables and variation in shape or between two shapes. It performs a two-block partial least-squares analysis. It differs from regression in that both variables and shape are considered equally (one is not considered to be a set of independent variables measured without error). Its use is described in Rohlf and Corti (2000, Systematic Biology, 49:740-753). By F. James Rohlf. Version 1.23. The 32 bit version is compatible with Windows XP to 10.||1/24/2016|
|Edgewarp||Thin-plane splines and related methods for 3D data. Linux and Mac OSX. Reads CT and other medical images in Dicom format and produces a grayscale volume which can be navigated and landmarked by the usual Edgewarp tools. Available from http://brainmap.stat.washington.edu/edgewarp. There are links to the software, documentation, and examples By Bill Green and Fred L. Bookstein.||9/13/2005|
|Thin-plate spline programs. DOS & Windows. An FTP directory containing the file SPLINE.ZIP that contains the programs JSPLINE and VECTOR. These compute thin-plate splines, principal and partial warps, etc, to compare two specimens. The VECTOR program displays principal and partial warps as vector diagrams. By Julian M. Humphries.||1/20/1994|
|VALSAIN||Valsain workshop. MATLAB. Program to do a relative warp analyis. By Les Marcus.||8/9/1993|
The shapes package is a set of procedures for statistical shape analysis in R. Includes functions for thin-plate spline transformation grids and other functions. Index file listing the main functions. By Ian Dryden. Version 1.0-7.