Three-mode software

(Other suppliers)

Introduction

Please contact the authors themselves to get the latest and most accurate information. Note also that the addresses were correct at the time they were entered but might have changed after that date.

Contents

• Common Principal Component Analysis - CPC
• Computation of core for PARAFAC
• DATAN - Trilinear modelling for fluorescence and NMR data
• MATLAB Toolbox for three-mode analysis: Various Three-way procedures; PARAFAC; Multiway-PLS
• MATLAB Library for three-mode programs including rotations for Tucker3 core arrays
• MATLAB program for the Tucker3 model
  
• MATLAB programs for Parafac models in signal processing
  
• MR/3 - Multiresolution Software for Three-Mode Analysis
• NewMDSX - A multidimensional scaling package including three-way scaling methods
• Parallel factor analysis - PARAFAC
• Parallel factor analysis with constraints/MATLAB/PASCAL
• PARDEC - A package with several Three-Mode Models
• PTAk - Principal Tensor Analysis on k-modes
• SAS-CALIS - Multimode Factor Analysis
• Simultaneous Components Analysis
• STATIS
• SUMMAX
• Three-mode mixture method of clustering
• Tucker3 model with missing data - GEPCAM

MATLAB Toolbox for three-mode analysis

• Description
  MATLAB toolboxes for data analysis: multi-way analysis, missing data, NMR modeling, PLS variable selection, PARAFAC2, numerical analysis (e.g. nonnegative, unimodal least squares regression), maximum likelihood fitting, multi-block modeling etc.
• Language/Operating systems
  Implemented in MATLAB under DOS; distribution on special request.
• Author(s) + address
  Dr. R. Bro & Dr. C.A. Andersson
  [ Home Page Bro] [ Home Page Andersson]
  [ N-way toolbox for Matlab: PARAFAC, Tucker, N-PLS, fast NNLS, unimodality, etc.] [ Application of multi-way partial least squares regression]  [PARAFAC tutorial]
  Please note that you will leave the Three-Mode Company area when you click these links.

MATLAB Library for three-mode programs

• Description
  MATLAB programs for performing three-mode data analysis and especially for rotating three-way core matrices
• Language/Operating systems
  Implemented in MATLAB; distribution on special request.
• Author(s) + address
  Prof. H.A.L. Kiers

MATLAB program for the Tucker3 model

• Description
  Three-mode principal component analysis, using Kroonenberg and De Leeuw's algorithm
• Language/Operating systems
  Implemented in MATLAB; distribution on special request only.
• Author(s) + address
  Prof. P.J. Gemperline

MATLAB programs for Parafac models in signal processing

• Description
  The suite consists of a collection of MatLab M-files to perform Parafac analysis with various degrees of sophistication.
  • TALS.m
    "Plain-vanilla" Matlab implementation of the PARAFAC 3-way alternating least squares algorithm. Works with real or complex-valued data. Very robust, but memory-intensive. Initialization provided by the user, or else random.
  • COMFAC.m
    This is a "loaded" Matlab implementation of 3-way PARAFAC fitting that incorporates various options and speed-ups. In particular, it performs Tucker3-compression of large arrays, followed by algebraic initialization in compressed space when appropriate, alternating least squares refinement in compressed space, decompression of the compressed solution, and final alternating least squares refinement in the original space. Works with real or complex data, but specifically designed to handle complex data. Gauss-Newton is also an option, instead of alternating least squares.
  • Also programs for Least Absolute Error (L₁ norm) PARAFAC fitting are available, but these have not been posted yet - please contact the author if you need this
• Language/Operating systems
  Implemented in MATLAB; downloadable from
  Triple SPICE website
• Author(s) + address
  Prof. Nikos Sidiropoulos

Common Principal Components Analysis

• Description
  Programs to perform Flury's Common Principal Components analysis. Common Principal Components (CPC) is a data analysis technique created by Bernhard Flury that allows two or more matrices to be compared in a hierarchical fashion. The ideas are most completely presented in Flury, B. (1988), Common Principal Components and Related Multivariate Methods. NewYork: Wiley. Further details are available from a readme file at the Web site of the author of the software Patrick Phillips. The software is available from his download page.
  Please note that you will leave the Three-Mode Company area when you click these links.
• Language/Operating systems
  Available for a large number of operating sytems, such as DOS, Windows 3.1/95/NT, UNIX, Macintish, etc.
• Author(s) + address
  Dr. Patrick Phillips, Evolutionary Genetics Research Group, Department of Biology, University of Oregon, Eugene, OR 97403-1210 Tel. (541) 346-0916, fax. (541) 346-2364.

GEPCAM - GEneralized Principal Components Analysis with Missing data

• Description
  Three-mode principal component analysis with a regression-based alternating least squares algorithm and special missing data handling.
• Language/Operating systems
  FORTRAN source file, includes two IMSL routines
• Author(s) + address
  Prof. J.C. van Houwelingen, Vakgroep Medische Statistiek en Informatica, Rijksuniversiteit Leiden, Wassenaarseweg 62, 2333 AK Leiden, The Netherlands.
  email

PARAFAC

• Description
  Parallel factor analysis for three-way data; includes among others missing data handling, data synthesization, split-half analyses.
• Language/Operating systems
  FORTRAN source; DOS executable
• Author(s) + address
  Prof. R.A. Harshman

PFCORE

• Description
  Computes core matrices for solutions from a parallel factor analysis for three-way data.
• Language/Operating systems
  FORTRAN source; DOS executable.
• Author(s) + address
  Prof. R.A. Harshman

PARAFAC with constraints/MATLAB/Pascal

• Description
  Parallel factor analysis for three-way data; also includes clustered variables.
• Language/Operating systems
  MATLAB implementation of PARAFAC; distribution upon special request only.
• Author(s) + address
  Dr. W.P. Krijnen

ACT (STATIS)

• Description
  Three-mode analysis of three-way data (tables) using three steps
  (1) an analysis of the elements of the third mode (interstructure)
  (2) the derivation of a summary of the frontal planes (compromise)
  (3) an analysis within each level of the third mode (intrastructure).
• Language/Operating systems
  Windows version is included in the SPAD-TM unit of the software system SPAD distributed by DECISIA.
  Website in French.
• Author(s) + address
  Dr. Ch. Lavit

SCA - Simultaneous Component Analysis

• Description
  Perfect congruence analysis and target rotations for sets of covariance (or correlation) matrices.
• Language/Operating systems
  Pascal; DOS executable.
• Distributor + address
  Assessment Systems Corporation, 2233University Ave. Suite 200, St. Paul, MN 55114, USA
  Website.
  (author: Prof. H.A.L. Kiers)

MIXCLUS3 - MIXture method of CLUStering for three-mode data

• Description
  Maximum-likelihood based clustering procedure using mixtures of normal distributions as its basic model.
• Language/Operating systems
  FORTRAN source file, or DOS executable.
• Author(s) + address
  Dr. K.E. Basford
  Website

SUMMAX

• Description
  A three-mode generalization of Thurstone's centroid factor analysis, in which the components (initially) have only elements 1, 0, and -1. Also handles a variant of the Parafac model.
• Language/Operating systems
  FORTRAN source; further details unknown
• Author(s) + address
  Prof. P. Orlik, Department of Psychology, Universität Saarbrücken, Saar, Germany.

MR/3 - Multiresolution Software for Three-Mode Analysis

• Description
  3D wavelet transforms, and combined wavelet transforms and principal components analysis (Karhunen-Loeve transform). Suitable for image sequences, color (RGB or other) images, time series of matrices, multi-channel and multi-band data, hyperspectral data, and video (if formatted as an image sequence).
• Language/Operating systems
  Available as executables (originally C++) for Windows 95/98/ME/2000/NT, Linux, and Solaris.
• Author(s) + address
  Jean-Luc Starck, CEA, Saclay, France, and Fionn Murtagh, Queen's University Belfast.
  Availability: Multi Resolutions Ltd.

DATAN - Trilinear modelling for fluorescence and NMR data

• Description
  Program for analyses of multidimensional spectroscopic measurements based trilinear decomposition that is particularly designed for fluorescence and nuclear magnetic resonance data.
• Language/Operating systems
  Windows 98/NT and UNIX.
• Author(s) + address
  Prof. Mikael Kubista e-mail
  Prof. Bjorn Sjogreen e-mail
  Amin Forootan e-mail
  MultiD Analyses AB .

SAS/CALIS - Multmode Factor Analysis

• Description
  Program for structural equation models in which both Lisrel, EQS and COSAN or RAM model formulations can be used. Also three-mode factor analysis on multimode covariance matrices can be carried out.
• Language/Operating systems
  Many operating systems (see SAS information).
• Author(s) + address
  Prof. Wolfgang Hartmann
  CALIS manual (at site of SAS).
  CALIS examples (stored on this Web site).

PARDEC - Package of Three-Mode Programs

• Description
  This package contains the following collection of algorithms: Tucker, PARAFAC, PARDEC, ORTDEC and some minor algorithms for computing initial approximation for PARAFAC algorithm and calculation of condition number of the solution.
• Language/Operating systems
  This package works on different platforms: Windows (95/98/NT/2000), Linux, SGI UNIX, DEC ALPHA and probably in others. You need Tcl/Tk and if you want (need) to compile the sources you need LAPACK and BLAS libraries. We strongly recommend to use optimized BLAS library that can be provided with your operating system or use the public domain ATLAS package because of 5-10 times improvement in speed.
• Author(s) + address
  Ilghiz Research is a company suggesting the three-way related software packages for scientific research developed in past few years for public domain. You can download it for free and use it with the restrictions written in corresponding agreement.

PTAk - Principal Tensor Analysis on k-modes

• Description
  A multiway method to decompose a tensor (array) of any order, as a generalisation of SVD also supporting non-identity metrics and penalisations. 2-way SVD with these extensions is also available. The package includes also some other multiway methods: PCAn (Tucker-n) and PARAFAC/CANDECOMP with these extensions.
• Language/Operating systems
  R PTAk
• Author(s) + address
  Didier Leibovici
  Examples
  Background and Manual

NewMDSX - Library of multidimensional scaling programs

• Description
  NewMDSX is a library of multidimensional scaling programs, with associated documentation & test input/output, downloadable from:
  NewMDSX
  • The MS-DOS version is available free.
  • The re-written NewMDSX for Windows (with graphics, data input wizards and other improvements) is currently available as a free 3-month beta-version, and will later be available at low cost as a supported package.
  • Programs are primarily drawn from Bell Labs and Guttman-Lingoes-Roskam sources, but also include MDSORT (Takane), CORRESP(ondence analysis), PRINCOMP as well as HICLUS and WOMBATS -- a general purpose program for manipulating data input and calculating measures of dis/similarity.
• Language/Operating systems
  MS-DOS and Windows
• Author(s) + address
  Prof. A. P. M. Coxon
  NewMDSX - All you want to know.

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