Software+&+Databases

Maintained by [|Wlodzislaw Duch]
 * ===More links on: AI and Machine Learning | AI in Information Retrieval | Cognitive science | Computational Intelligence | Neuroscience | Software & Databases | Science & Fringes | Comparison of classfication results | Logical rules extracted from data |=== ||

 Red color = superpages. [|Older version of this page] in Polish.

Neural Networks | Neuroscience | Machine Learning + AI | Data Mining | Math & Statistics | Visualization of multidimensional data | Other software | Databases |


 * ==Neural Networks== ||

 [|Gepetto] list, from Amsterdam  [|Internet Analysis Tools Registry], supported by The Human Brain Project  [|Neural/AI Software] - great list from Aston University  [|Neuroinformatics software tools]  [|NN simulation tools] - Franz Kurfess, Uni. Ulm, over 50 programs  [|Free & Shareware Simulators] - about 100 programs, PNL Computational Intelligence list  [|Free & Shareware Simulators] - over 40 programs, PNL Neural Networks list  [|Mathtools], many programs.  [|Neural Software] - from Bristol, over 20 programs  [|Neural Networks and Fuzzy Systems], including Association Rule Induction, Regression, Trees, Bayes Classifier, Graphical Models, Network Training, Probabilistic and Fuzzy Clustering, Convex Hull Construction
 * **Lists of links**: ||

[|Artificial Neural Networks Lab: Java applets and GIF-animation] [|Many nice demonstrations: SVM, boosting, trees]  [| DemoGNG], competitive learning (Loos, Fritzke)  [|Java demos of genetic and NN programs]  [|Neural tutorial with Java applets] <span style="font-family: Arial,Helvetica;"> [|Java Applets for Neural Network and Artificial Life] <span style="font-family: Arial,Helvetica;"> [|RBF demo] (Hong, MIT) <span style="font-family: Arial,Helvetica;"> [|Virtual Minds] Java demo <span style="font-family: Arial,Helvetica;"> [|WebSim Java demo]: neural, optimization, plots (Boston U.) <span style="font-family: Arial,Helvetica;"> [|Sharky NN], nice 2D visualizations.
 * **On-line neural demos**: ||

<span style="font-family: Arial,Helvetica;">[|Deep Learning] Software and info
 * **Large software packages** ||

[|Comparison of deep learning software] - Wiki

<span style="font-family: Arial,Helvetica;">[|KD nuggets, long list of software] for data mining. <span style="font-family: Arial,Helvetica;"> [|GASP, Globally Accessible Statistical Procedures], mostly applets. <span style="font-family: Arial,Helvetica;"> [|Java Neural Network Simulator], JNNS (new version of SNNS) <span style="font-family: Arial,Helvetica;">[|KEEL] - Knowledge Extraction Evolutionary Learning, 450 modułów! <span style="font-family: Arial,Helvetica;"> [|KNIME], includes Weka and R-scripts. <span style="font-family: Arial,Helvetica;"> [|LNKnet, MIT], neural, statistical, machine learning, dead project. <span style="font-family: Arial,Helvetica;"> [|LENS, light, efficient network simulator] <span style="font-family: Arial,Helvetica;"> [|Orange, from Slovenia], component-based data mining software, includes SOM, MDS and other visualizations, 2006; some [|additional modules]. <span style="font-family: Arial,Helvetica;"> [|Pentaho data mining] (based on Weka) <span style="font-family: Arial,Helvetica;"> [|R-project, statistical computing] | [|R Rattle], R for data mining | <span style="font-family: Arial,Helvetica;"> [|SciViews open source], data acquisition, space-time series, image analysis etc. <span style="font-family: Arial,Helvetica;"> [|Stuttgart Neural Network Simulator] (SNNS), [|copy in Poland] <span style="font-family: Arial,Helvetica;"> [|WEKA, Machine Learning Project], many models | [|WEKA Metalearning] <span style="font-family: Arial,Helvetica;"> [|YALE], Yet Another Learning Environment, in Java, includes Weka models | now [|Rapid Miner] <span style="font-family: Arial,Helvetica;"> [|Efficient Learning, Large-scale Inference, and Optimization Toolkit] <span style="font-family: Arial,Helvetica;"> **General software packages**: <span style="font-family: Arial,Helvetica;"> [|Matlab clones] page: [|Scilab] | [|Rlab] | [|Octave] | <span style="font-family: Arial,Helvetica;"> **SOM software**: <span style="font-family: Arial,Helvetica;"> [|EUDAPTICS - SOMine] (demo) <span style="font-family: Arial,Helvetica;"> [|ESO, Emergent SOM], Databionic tool. <span style="font-family: Arial,Helvetica;"> [|WEBSOM for free-text browsing] <span style="font-family: Arial,Helvetica;"> [|JavaSOM] <span style="font-family: Arial,Helvetica;"> [|LVQ and SOM-PACK], HUT | [|SOM Toolbox in Matlab], Helsinki <span style="font-family: Arial,Helvetica;"> [|SOM and LISSOM], with some programs for NLP, from UTCS Tx | <span style="font-family: Arial,Helvetica;"> **Other software packages with neural models**: <span style="font-family: Arial,Helvetica;"> [|DDlab, discrete dynamics networks] <span style="font-family: Arial,Helvetica;"> [|DDtools, data description toolbox], one-class problems. <span style="font-family: Arial,Helvetica;"> [|Dynamics - program i tutorial] | <span style="font-family: Arial,Helvetica;"> [|DIBA], with interesting visualization. <span style="font-family: Arial,Helvetica;"> [|ffnet], regularization, SA and other interesting things. <span style="font-family: Arial,Helvetica;"> [|Joone, Java free NN engine] <span style="font-family: Arial,Helvetica;"> [|LENS], with good visualization. <span style="font-family: Arial,Helvetica;"> [|LVQ visualization], Magdeburg | <span style="font-family: Arial,Helvetica;"> [|Pajek, from Slovenia], social networks analysis | [|an introduction to Pajek] | <span style="font-family: Arial,Helvetica;"> [|Quantum clustering], D. Horn | <span style="font-family: Arial,Helvetica;"> [|SimBrain], NN+MDS. <span style="font-family: Arial,Helvetica;"> [|Another SimBrain], with integrate/fire neurons. <span style="font-family: Arial,Helvetica;"> [|Spider], Matlab object-oriented machine learning, SVM-oriented. <span style="font-family: Arial,Helvetica;"> [|Shogun], A Large Scale Machine Learning Toolbox <span style="font-family: Arial,Helvetica;"> [|Netlab] (Bishop, Nabney) - programs in Matlab for NN and Bayes nets, [|copy in Torun] <span style="font-family: Arial,Helvetica;"> [|Neural Networks at your Fingertips], program sources, K. Kutza. <span style="font-family: Arial,Helvetica;"> [|Neuralogic Windows: Ultra High Performance NN] (PC, Cray) <span style="font-family: Arial,Helvetica;"> [|NODELIB, Neural Optimization Development Engine library] (PC, Cray) <span style="font-family: Arial,Helvetica;"> [|Oxlearn], Matlab-based Neural Network Simulator for Education. <span style="font-family: Arial,Helvetica;"> [|PDP ++ 2003], new version from the PDP book of Rumelhart and McClelland | [|RNS++ 2005], even newer version based on PDP++ <span style="font-family: Arial,Helvetica;"> [|Semeion software], many types of networks from Italy <span style="font-family: Arial,Helvetica;"> [|SNARLI], Java, by Simon D. Levy. <span style="font-family: Arial,Helvetica;"> [|Sieci Neuronowe dla każdego!] Z programami w C# (2007)

<span style="font-family: Arial,Helvetica;">List: [|Neuroscience simulation software] List of [|computational neuroscience software] <span style="font-family: Arial,Helvetica;">[|Brian spiking network] simulator. [|Emergent] - extension of PDP++,<span style="font-family: Arial,Helvetica;">Randall C. O'Reilly
 * ==Neuroscience== ||

<span style="font-family: Arial,Helvetica;"> [|GENESIS Simulator], biological neurons <span style="font-family: Arial,Helvetica;"> [|EEGLAB, signal processing in Matlab], EEG, MEG and other electrophysiological signals. <span style="font-family: Arial,Helvetica;"> [|ICAlab] and [|NMFlab] and [|ButIf bump analysis] from Cichocki group, RIKEN BSI <span style="font-family: Arial,Helvetica;"> [|Keenan's Software for Memory and Cognition], psychological experiments <span style="font-family: Arial,Helvetica;"> [|LORETA software and papers], low resolution brain electromagnetic tomography. <span style="font-family: Arial,Helvetica;"> [|Mantra - Neural Java], spiking neuron and other models (Gerstner) <span style="font-family: Arial,Helvetica;"> [|NeuroGuide dynamic EEG] [|Nengo] rapid spiking network simulator <span style="font-family: Arial,Helvetica;"> [|NEST initiative] <span style="font-family: Arial,Helvetica;"> [|Delay Vector Variance] (DVV) toolbox for time series (Mandic). <span style="font-family: Arial,Helvetica;"> [|e-connectome], (Electrophysiological Connectome) is an open-source MATLAB software package for imaging brain functional connectivity from electrophysiological signals. <span style="font-family: Arial,Helvetica;"> [|GhostMiner Software] <span style="font-family: Arial,Helvetica;"> [|GTech], brain signals in Matlab
 * **Commercial and demos** ||

<span style="font-family: Arial,Helvetica;"> [|Gensym Corporation], intelligent operations management, neural & AI software <span style="font-family: Arial,Helvetica;">[|LocBoost] and other goodies, Java demo <span style="font-family: Arial,Helvetica;"> [|FuzzyTech], fuzzy and neurofuzzy

<span style="font-family: Arial,Helvetica;"> [|IFS Limited], Amber i Onyx neuroforcasting <span style="font-family: Arial,Helvetica;"> [|Orka, NN/GA software] Arkus (Wroclaw), demo <span style="font-family: Arial,Helvetica;"> [|NeuroSolutions] Evaluation Edition <span style="font-family: Arial,Helvetica;"> [|NeuroShell Easy and Gene Hunter] demos, Ward Systems Group <span style="font-family: Arial,Helvetica;"> [|Saxon], NN+MDS. <span style="font-family: Arial,Helvetica;">[|Synapse by Peltarion], nice interface and many functions, 30 days demo <span style="font-family: Arial,Helvetica;"> [|Universal Problem Solvers, Inc.](Transdimensional Learning, MPIL) <span style="font-family: Arial,Helvetica;"> [|Neural Connection - SPSS] <span style="font-family: Arial,Helvetica;"> [|Vitalnet System for Analyzing Health Data] <span style="font-family: Arial,Helvetica;"> [|Z-solutions]

Artificial Intelligence (symbolic)
[|GNU/Linux AI & Alife] HOWTO list of software packages [|AI Planning Systems] (Maryland) [|AI Medical Systems in Routine Use] [|Soar] (Newell, Simon, Laird, others) - expert system with some learning capabilities <span style="font-family: Arial,Helvetica;">See also Cognitive Architectures page <span style="font-family: Arial,Helvetica;">Lists of packages <span style="font-family: Arial,Helvetica;"> [|CMU Software in ML] list <span style="font-family: Arial,Helvetica;"> [|Cagliari University list] <span style="font-family: Arial,Helvetica;"> [|Gaussian Processes], list of packages <span style="font-family: Arial,Helvetica;">[|T++, a C++ library] of mathematical, signal processing, speech processing, and communications classes and functions. <span style="font-family: Arial,Helvetica;"> [|KDnets Software] - long list <span style="font-family: Arial,Helvetica;"> [|KDnuggets Siftware] - long list <span style="font-family: Arial,Helvetica;"> [|Matlab CI software], Kevin Murphy. <span style="font-family: Arial,Helvetica;"> [|Model and Mine], list of DM packages <span style="font-family: Arial,Helvetica;"> [|ML-Net Software links] <span style="font-family: Arial,Helvetica;"> [|Machine Learning Library] in C++, a bit hard to use (Silicon Graphics) <span style="font-family: Arial,Helvetica;"> [|Machine Learning Open Source Software], long list <span style="font-family: Arial,Helvetica;"> [|Neural/AI Software] (from Aston) <span style="font-family: Arial,Helvetica;"> [|Sciview list] of software packages <span style="font-family: Arial,Helvetica;"> [|Torch ML Library] in C++, free <span style="font-family: Arial,Helvetica;"> [|Tom Mitchell], NN + Bayes + Decision Tree software <span style="font-family: Arial,Helvetica;"> [|CBA, Classification and Association Rules], NUS Singapore <span style="font-family: Arial,Helvetica;"> [|Domrule, logical rules], Lin Min Fu <span style="font-family: Arial,Helvetica;"> [|Emerald], AG and other ML software, Michalski's GMU lab <span style="font-family: Arial,Helvetica;"> [|MLC++, Color GLDs] <span style="font-family: Arial,Helvetica;"> [|ML archive] - University of Portsmouth AI Group <span style="font-family: Arial,Helvetica;"> [|Tools for learning CI], for AI course; <span style="font-family: Arial,Helvetica;"> [|ID3 Code] with examples, decsion tree <span style="font-family: Arial,Helvetica;"> [|NETLAB] Bayesian Neural Networks (Bishop, Nabney), [|copy in Torun] <span style="font-family: Arial,Helvetica;"> [|N-body methods], fast O(N) learning; <span style="font-family: Arial,Helvetica;"> [|RIPPER] rule induction <span style="font-family: Arial,Helvetica;"> [|Statistical Pattern Recognition Lib] (from TU Delft) <span style="font-family: Arial,Helvetica;"> [|TANAGRA], includes visualization, clustering, association, supervised learning. <span style="font-family: Arial,Helvetica;"> [|TiMBL, Memory-Based Learning techniques] <span style="font-family: Arial,Helvetica;"> [|Forte (First Order Revision of Theories from Examples)] machine learning system
 * ==Machine Learning & Data Mining== ||

<span style="font-family: Arial,Helvetica;"> [|GROBIAN project] - user-friendly rough set software <span style="font-family: Arial,Helvetica;"> [|Reduct & Lobbe Technologies] (rough sets, Canada) <span style="font-family: Arial,Helvetica;"> [|Rosetta] (rough sets) <span style="font-family: Arial,Helvetica;"> [|Rough Enough] (Torvill Bjorvand) <span style="font-family: Arial,Helvetica;"> [|ROSE] Rough Set Software, II-PP <span style="font-family: Arial,Helvetica;"> [|Rough Set software] (Uni. Regina) <span style="font-family: Arial,Helvetica;"> [|Rough Set systems, Inc.] <span style="font-family: Arial,Helvetica;"> [|Rough Set Exploration System (RSES)] <span style="font-family: Arial,Helvetica;"> [|Rseslib], library of machine learning data structures and algorithms implemented in Java.
 * **Rough sets**: ||

<span style="font-family: Arial,Helvetica;">[|CBR Software List] <span style="font-family: Arial,Helvetica;"> [|CBR Software], Haley Enterprise
 * **CBR, Case-Based**: ||

<span style="font-family: Arial,Helvetica;">[|Algorithm visualizations] <span style="font-family: Arial,Helvetica;"> [|Walrus - hyperbolic 3D] vis. <span style="font-family: Arial,Helvetica;"> [|C5.0, See5 & Cubist] (Ross Quinlan, [|Rulequest Research]) | [|C4.5 software and tutorial] | <span style="font-family: Arial,Helvetica;"> [|YaDT, fast tree] and C4.5 improvements EC4.5 | <span style="font-family: Arial,Helvetica;"> [|Occam tree] from Visionary Tools | <span style="font-family: Arial,Helvetica;"> [|Automated Reasoning], troubleshooting support <span style="font-family: Arial,Helvetica;"> [|dmt - automatic identification] <span style="font-family: Arial,Helvetica;"> [|Free Statistical Software] <span style="font-family: Arial,Helvetica;"> [|Genetic Algorithms Digest] <span style="font-family: Arial,Helvetica;"> [|Generate new ideas] creativity support software ! <span style="font-family: Arial,Helvetica;"> [|Partek Data Analysis & Modeling Software]: PR, NN, Data Mining, [|demo] <span style="font-family: Arial,Helvetica;"> [|Machine Learning for Cancer Diagnosis and Prognosis] <span style="font-family: Arial,Helvetica;"> [|NeuroSoft] SynthTalk, Gam, Regulus
 * **Varia**: ||

<span style="font-family: Arial,Helvetica;">[|Ahlea Systems Corp: Pattern Recognition in Matlab], Software Patches, commercial <span style="font-family: Arial,Helvetica;"> [|caret: Classification and Regression Training], in R <span style="font-family: Arial,Helvetica;"> [|SprLib and ANNLib], from Delft Technical University Pattern Recognition Group <span style="font-family: Arial,Helvetica;"> [|PRTools - Pattern Recognition Tools] (Heijden, Duin, de Ridder, Tax) <span style="font-family: Arial,Helvetica;"> [|Statistical Pattern Recognition Toolbox] <span style="font-family: Arial,Helvetica;"> [|TOOLDIAG pattern recognition toolbox] <span style="font-family: Arial,Helvetica;">[|FLANN], Fast Library for Approximate Nearest Neighbors
 * **Pattern recognition** ||

<span style="font-family: Arial,Helvetica;">[|Data Mining Software List] <span style="font-family: Arial,Helvetica;"> [|Data Mining Software Vendors] <span style="font-family: Arial,Helvetica;"> [|Cognitive Processor] - Molly Group support management software, data mining <span style="font-family: Arial,Helvetica;"> [|Free and Commercial Data Mining Software] <span style="font-family: Arial,Helvetica;">[|GMDH Shell: Data Mining & Forecasting Software] (available for free download) <span style="font-family: Arial,Helvetica;">[|DM Review list] (see Software Demos) <span style="font-family: Arial,Helvetica;"> [|DM Maximizer], DMM demo | [|DMS on-line serwer], Inductive Learning by Logic Minimization (ILLM) | [|Galvano software], French group, many programs, with DM tutorial | [|GhostMiner Software] | [|Statconsulting PL] | [|IBM Quest] (free) | [|Info-Fuzzy Network (IFN)] (free) | [|Mine It] Easyminer | <span style="font-family: Arial,Helvetica;"> [|SAS Enterprise Miner] | [|SGI MineSet] | [|Xpert Rule Miner] (Attar Software) | [|XELOPES library], embedded DM | <span style="font-family: Arial,Helvetica;"> [|Business Miner] (BusinessObjects) | <span style="font-family: Arial,Helvetica;"> [|Molecular Mining] (bioinformatics software GeneLinker) <span style="font-family: Arial,Helvetica;"> [|Dragon Genome Explorer] <span style="font-family: Arial,Helvetica;"> [|Psychometric test] |
 * ==Data mining== ||

<span style="font-family: Arial,Helvetica;">[|Netlib] - numerical software <span style="font-family: Arial,Helvetica;"> [|Statlib] - statistical software <span style="font-family: Arial,Helvetica;"> [|Boost graphics library] <span style="font-family: Arial,Helvetica;"> [|JBoost for boosting clasification], with ADTrees. <span style="font-family: Arial,Helvetica;"> [|Darren guide] to statistical resources, software <span style="font-family: Arial,Helvetica;"> [|Exact randomisation statistics] software list <span style="font-family: Arial,Helvetica;"> [|Free statistical software packages] <span style="font-family: Arial,Helvetica;"> [|Guide to mathematical software] (NIST, excellent) <span style="font-family: Arial,Helvetica;"> [|Sources of Math Software] (NIST) <span style="font-family: Arial,Helvetica;"> [|Statistical and Computational Software] (RFE list) <span style="font-family: Arial,Helvetica;"> [|Statistics.com] tools, software, data
 * ==Math & Statistics - lists== ||

<span style="font-family: Arial,Helvetica;"> [|Anderson Hospital, biostatistics programs] <span style="font-family: Arial,Helvetica;"> [|Demo of genetic and NN algorithms in Java] <span style="font-family: Arial,Helvetica;"> [|GMM and MINZ packages in Matlab], spectral density, probit, logit (Mike Cliff) <span style="font-family: Arial,Helvetica;"> [|Mathematical Programming in Machine Learning] (Wisconsin) <span style="font-family: Arial,Helvetica;"> [|Ordination software] (for ecologist) <span style="font-family: Arial,Helvetica;"> [|Provalis Research]: MultiVariate Statistical + inne programy statystyczne. <span style="font-family: Arial,Helvetica;"> [|Statistical Analysis and Graphics], Java Applets <span style="font-family: Arial,Helvetica;"> [|Statistical Software Components] from Boston College Department of Economics <span style="font-family: Arial,Helvetica;"> [|Web Pages that Perform Statistical Calculations!] also many free statistical packages. <span style="font-family: Arial,Helvetica;"> [|Scientific software], Word2Tex etc (useful)

<span style="font-family: Arial,Helvetica;">[|List from Statistics.com] tools, software, data | [|list from recursive partitioning] <span style="font-family: Arial,Helvetica;"> [|AMELIA: A Program for Missing Data], statistical software, Gary King <span style="font-family: Arial,Helvetica;"> [|AutoClass - Bayesian classification and clustering] <span style="font-family: Arial,Helvetica;"> [|CN2 decision tree] <span style="font-family: Arial,Helvetica;"> [|EMMIX], EM mixture model <span style="font-family: Arial,Helvetica;"> [|Medcalc, statistics for biomedical research] <span style="font-family: Arial,Helvetica;">[|Multiple imputation software] <span style="font-family: Arial,Helvetica;"> [|NEFCLASS< NEFCON< NEFPROX] neurofuzzy software (Nauck) <span style="font-family: Arial,Helvetica;"> [|SISA, Simple Interactive Statistical Analysis] <span style="font-family: Arial,Helvetica;"> [|SNOB MML unsupervised classification] <span style="font-family: Arial,Helvetica;"> [|TimeStat:]freeware PCA, ARMA, FTT, spreadsheet style <span style="font-family: Arial,Helvetica;"> [|ttests and other statitical tests] from Paul Barrett <span style="font-family: Arial,Helvetica;"> [|Trevor Hasti: SVMs, discriminant and prinicipal curves] <span style="font-family: Arial,Helvetica;"> [|Vista - visual statistics] <span style="font-family: Arial,Helvetica;"> <span style="font-family: Arial,Helvetica;"> **SVM and kernel methods** <span style="font-family: Arial,Helvetica;"> [|Software list from Kernel-machines.org] <span style="font-family: Arial,Helvetica;"> [|Comparison of SVM software] (getting old, 2005) <span style="font-family: Arial,Helvetica;"> [|Kernel methods in Pattern Analysis] list, John Shawe-Taylor & Nello Cristianini, 2004 <span style="font-family: Arial,Helvetica;"> [|Wikipedia SVM list] <span style="font-family: Arial,Helvetica;"> [|SVM On-line demonstration] <span style="font-family: Arial,Helvetica;"> [|BSVM], SVM solved by another method <span style="font-family: Arial,Helvetica;"> [|Core Vector Machine], fastest SVM around? <span style="font-family: Arial,Helvetica;"> [|GiniSVM], SVM for regression <span style="font-family: Arial,Helvetica;"> [|GIST], SVM and kernel PCA (Unix only) <span style="font-family: Arial,Helvetica;"> [|HeroSVM] <span style="font-family: Arial,Helvetica;"> [|LIBSVM], SVM for large classification and regression <span style="font-family: Arial,Helvetica;"> [|LIBLINEAR]: A Library for Large Linear Classification. <span style="font-family: Arial,Helvetica;"> [|LSSVMlab], least squares SVM, Matlab toolbox + tutorials <span style="font-family: Arial,Helvetica;"> [|P-SVM software] <span style="font-family: Arial,Helvetica;"> [|Multivariate Relevance Vector Machine] (MVRVM) <span style="font-family: Arial,Helvetica;"> [|Shogun - A Large Scale Machine Learning Toolbox] <span style="font-family: Arial,Helvetica;"> [|SVM-Light], SVM software for regresion and classification <span style="font-family: Arial,Helvetica;"> [|SVM in the primal], Matlab code
 * **Free software**: ||

<span style="font-family: Arial,Helvetica;"> [|BMR: Bayesian Multinomial Regression Software] <span style="font-family: Arial,Helvetica;"> [|DTREG: SVM, decision tree + logistic regression] (commercial, demo available)

<span style="font-family: Arial,Helvetica;"> **Clustering** [|Affinity propagation] <span style="font-family: Arial,Helvetica;">[|COMPACT - Comparative Package for Clustering Assessment], D. Horn <span style="font-family: Arial,Helvetica;"> [|CLUSION], Cluster Analysis and Cluster Ensemble Software <span style="font-family: Arial,Helvetica;"> [|CLUTO], Clustering High-Dim data, texts <span style="font-family: Arial,Helvetica;"> [|Dendrograms data clustering] <span style="font-family: Arial,Helvetica;"> [|Fuzzy Clustering] <span style="font-family: Arial,Helvetica;"> [|G-means, C++ program] <span style="font-family: Arial,Helvetica;"> [|Joining clustering algorithms], dendrograms and other <span style="font-family: Arial,Helvetica;"> [|KlustaKwik, Automatic Clustering] <span style="font-family: Arial,Helvetica;"> [|MCL - a cluster algorithm for graphs] <span style="font-family: Arial,Helvetica;"> [|MIXMOD (MIXture MODelling)], fits mixture models <span style="font-family: Arial,Helvetica;"> [|Multi-dimensional Clustering and Outlier Detection] <span style="font-family: Arial,Helvetica;"> [|PermutMatrix], seriation analysis. <span style="font-family: Arial,Helvetica;"> [|Quantum clustering], D. Horn | <span style="font-family: Arial,Helvetica;"> [|SP-means, C++ program]

<span style="font-family: Arial,Helvetica;">[|Parallel Performance Group, Inc.], High-Technology Commercial Software <span style="font-family: Arial,Helvetica;"> [|CART] | [|MARS] | [|GMAX-DM], genetic system (Salford Systems) <span style="font-family: Arial,Helvetica;"> [|Data Desk (Majih)] <span style="font-family: Arial,Helvetica;"> [|AccuROC for Windows] | [|GraphROC for Windows] <span style="font-family: Arial,Helvetica;"> [|Minitab (Minitab Inc)] <span style="font-family: Arial,Helvetica;"> [|Predictive Data Mining], Weiss S, Indurkhya, book and software <span style="font-family: Arial,Helvetica;"> [|Simstat for Windows] [|StatSoft Polska] Sp. z o.o. - STATISTICA <span style="font-family: Arial,Helvetica;"> [|StatSol], missing data, statistical software <span style="font-family: Arial,Helvetica;"> [|Stata] statistical software <span style="font-family: Arial,Helvetica;"> [|Statgraphics (Manugistics Inc)], STATG-PL <span style="font-family: Arial,Helvetica;"> [|CSS STATISTICA (StatSoft Inc.)] <span style="font-family: Arial,Helvetica;"> [|SPSS] (SPSS Inc.), pakiet [|Systat] <span style="font-family: Arial,Helvetica;"> [|SAS Institute] - DSS, data mining <span style="font-family: Arial,Helvetica;"> [|S-Plus (Mathsoft)] <span style="font-family: Arial,Helvetica;"> [|StatXact, LogXact (Cytel)]
 * **Commercial Statistical Software**: ||

<span style="font-family: Arial,Helvetica;">Larger lists of software pacakges:
 * ==Visualization of multidimensional data== ||
 * 1) [|IVS - Information Visualization Software Repository], many interesting algorithms
 * 2) [|Info Visualizations at Infovis-Wiki]
 * 3) [|Graphics and data analysis software]
 * 4) [|Information Visualization], T. Cribbin.
 * 5) [|Long list of packages from UBC]
 * 6) [|On-line Library of Information Visualization Environments].

<span style="font-family: Arial,Helvetica;">**MDS software**: [|Collection of MDS-like programs] | [|Taguchi MDS programs collection] | [|HiT-MDS], fast MDS | [|MDS], multidimensional scaling | [|MDS Alscal] | [|HiT-MDS], using correlation coefficient | [|New MDSX], multidimensional scaling | [|Permap MDS] | [|ALSCAL] - old MDS Program [|several MDS packages], from Granular.com | [|HMDS: Hyperbolic Multidimensional Scaling] | [|HMDS project] | [|HMDS paper (2004)] | <span style="font-family: Arial,Helvetica;"> [|Proximity visualization], W. Basalaj, interesting thesis

<span style="font-family: Arial,Helvetica;"> [|CAIDA Visualization Tools], Internet data visualization. <span style="font-family: Arial,Helvetica;"> [|COVIAGRA, Learning Coordinate Covariances via Gradients], Matlab code. <span style="font-family: Arial,Helvetica;"> [|Davis - PCA, parallel, dendrograms, touring] ... <span style="font-family: Arial,Helvetica;"> [|Facet Analysis], Smallest Space Analysis, Multidimensional Scalogram Analysis, Partial Order Scalogram Analysis <span style="font-family: Arial,Helvetica;"> [|GCSVIS] - Growing Cell Structures. <span style="font-family: Arial,Helvetica;"> [|Ggobi for Windows]- many visualizations | [|GE Data visualization] collection <span style="font-family: Arial,Helvetica;"> [|GTM] - Bishop and Svensen. <span style="font-family: Arial,Helvetica;"> [|Hierarchical Clustering Explorer] for Interactive Exploration of Multidimensional Data. <span style="font-family: Arial,Helvetica;"> [|HiSee project], Scott Hotton and Jeff Yoshimi. <span style="font-family: Arial,Helvetica;"> [|Hyperplane animator] <span style="font-family: Arial,Helvetica;"> [|KNOT Tools for Pathfinder Network Analysis] | <span style="font-family: Arial,Helvetica;"> [|Levenstein Software] <span style="font-family: Arial,Helvetica;"> [|Locally Linear Embedding] <span style="font-family: Arial,Helvetica;"> [|MaxdView], bioinfo data <span style="font-family: Arial,Helvetica;"> [|MANIfold learning], Matlab for ISOMAP, LLE, Hessian LLE, Laplacian, and LTSA. <span style="font-family: Arial,Helvetica;"> [|Orange, from Slovenia], includes parallel coordinates, multigrams, SOM, MDS ... <span style="font-family: Arial,Helvetica;"> [|Pathfinder Networks Wiki] <span style="font-family: Arial,Helvetica;"> [|PhiVis], hierarchical visualization - Bishop and Tipping <span style="font-family: Arial,Helvetica;"> [|Parvis], a tool for parallel coordinates <span style="font-family: Arial,Helvetica;"> [|Radviz visualization] <span style="font-family: Arial,Helvetica;"> [|Spotfire] - clustering, visualization <span style="font-family: Arial,Helvetica;"> [|SigViewer], visualization of biosignals <span style="font-family: Arial,Helvetica;"> [|Visalix], Visual Interactive System for Annotation and LearnIng at Xerox. <span style="font-family: Arial,Helvetica;"> [|Visual insights], methods and software for e-Business. <span style="font-family: Arial,Helvetica;"> [|WheelVue visualization] - Excel, tree-like diagrams [|XDAT - A free software for multidimensional data analysis and visualization] <span style="font-family: Arial,Helvetica;"> [|Xgobi, XGvis] - many visualizations | [|tutorial, gene expression data] | <span style="font-family: Arial,Helvetica;"> [|Principal curves] page | [|Local principal curves] in R <span style="font-family: Arial,Helvetica;"> [|Reccurrence plots] (N. Marwan and others)

[|PyCogent] - a software library for genomic biology, good FastMDS program <span style="font-family: Arial,Helvetica;">[|More visualization algorithms]

<span style="font-family: Arial,Helvetica;">[|LEDA, Library of Efficient Data types and Algorithms] <span style="font-family: Arial,Helvetica;"> [|Benchin Software Reviews] - also for statistical/ AI/ neural software <span style="font-family: Arial,Helvetica;"> [|Jadex BDI Agents] Java software <span style="font-family: Arial,Helvetica;"> [|Software in Mental Health] <span style="font-family: Arial,Helvetica;"> [|Intel probabilistic network library] | [|Audio-Visual Speech Recognition] | [|Intel Open Source Computer Vision] <span style="font-family: Arial,Helvetica;"> [|Visumap - Relational Perspective Maps] (free trial) <span style="font-family: Arial,Helvetica;"> [|Dimensionality reduction], many embedding methods, Matlab package.
 * ==Other software== ||

<span style="font-family: Arial,Helvetica;">[|MMPI/MMPI-2 Adult Interpretive Report] | [|Psychological Assessment Resources] | [|Psychological Science net] |
 * **Psychometric programs**: ||

<span style="font-family: Arial,Helvetica;">[|INFORMS OR/MS Resource Collection]. <span style="font-family: Arial,Helvetica;"> [|ASA, Ingber Lester]- Adaptive Simmulated Annealing code <span style="font-family: Arial,Helvetica;"> [|Global Optimization: Software, Events, Publications, Home Pages] <span style="font-family: Arial,Helvetica;"> [|Merlin - multidimensional optimization] <span style="font-family: Arial,Helvetica;"> [|NEOS Guide: Optimization Software] <span style="font-family: Arial,Helvetica;"> [|Multisimplex methods], demo. <span style="font-family: Arial,Helvetica;"> [|Simulated Annealing] info i software. <span style="font-family: Arial,Helvetica;"> <span style="font-family: Arial,Helvetica;">[|Bayes Belief Networks] + HMM + MDP + Kalman filter, Kevin Murphy. <span style="font-family: Arial,Helvetica;"> [|Bayesian Knowledge Discovery] <span style="font-family: Arial,Helvetica;"> [|Bayesia Lab], Bayesia. <span style="font-family: Arial,Helvetica;"> [|Bayesware Discoverer] (commercial) <span style="font-family: Arial,Helvetica;"> [|Bayesian Network Repository] <span style="font-family: Arial,Helvetica;"> [|Bayesian Net Library] (Norsys) <span style="font-family: Arial,Helvetica;"> [|Bayes net Matlab toolbox] (K. Murphy) <span style="font-family: Arial,Helvetica;"> [|Bayesware Ltd Discoverer] <span style="font-family: Arial,Helvetica;"> [|Belief Network (BN) PowerConstructor] <span style="font-family: Arial,Helvetica;"> [|Elvira project] | and [|more on the Elvira project]. <span style="font-family: Arial,Helvetica;"> [|GeNIe and SMILE]- building graphical decision-theoretic models, Bayesian networks, influence diagrams, and structural equation models. <span style="font-family: Arial,Helvetica;"> [|Netica], "the world's most widely used Bayesian network development software". <span style="font-family: Arial,Helvetica;"> [|Rectified Gaussian Belief Networks] (MIT), Matlab Program <span style="font-family: Arial,Helvetica;"> [|Software for Manipulating Belief Networks] (> 10 packages) and for [|Learning Belief Networks] from Data
 * **Optimization**: ||
 * **Belief (Bayesian) networks**: ||

<span style="font-family: Arial,Helvetica;">[|GA Archive] <span style="font-family: Arial,Helvetica;"> [|NeuCom - A Neuro-computing Decision Support Enviroment] (KEDRI) <span style="font-family: Arial,Helvetica;"> [|Jerzy Korczak, Strassbourg group], several packages.
 * **Genetic/evolutionary optimization software**: ||

<span style="font-family: Arial,Helvetica;">[|HMMER - hidden Markov models of DNA and protein consensus][|HMM + MDP], Kevin Murphy.
 * **HMM**: ||

<span style="font-family: Arial,Helvetica;">[|Blind Source Separation Using Temporal Predictability], Matlab code <span style="font-family: Arial,Helvetica;"> [|Several ICA algorithms], Matlab code (DK) <span style="font-family: Arial,Helvetica;"> [|ICA Lab], Matlab code, RIKEN <span style="font-family: Arial,Helvetica;"> [|Tree-Dependent CA], Matlab code <span style="font-family: Arial,Helvetica;"> [|MISEP Linear and Nonlinear ICA Toolbox] <span style="font-family: Arial,Helvetica;"> [|Empirical Mode Decomposition]. 
 * **ICA**, Independent Component Analysis + variants ||

<span style="font-family: Arial,Helvetica;">See also [|NLP tools] on the AI in IR list. <span style="font-family: Arial,Helvetica;"> [|NLP Tools list] <span style="font-family: Arial,Helvetica;"> [|list of NLP software from Uni. Mass.]. <span style="font-family: Arial,Helvetica;"> [|Proxem NLP Resources] <span style="font-family: Arial,Helvetica;"> [|Bow and Rainbow Toolkit], with C source code. <span style="font-family: Arial,Helvetica;"> [|CLUTO], Clustering High-Dim data, texts. <span style="font-family: Arial,Helvetica;"> [|Ellogon], a multi-lingual, cross-platform, general-purpose language engineering environment. <span style="font-family: Arial,Helvetica;"> [|LingPipe, Java NLP tools], with MedLine support. <span style="font-family: Arial,Helvetica;"> [|Mallet project, in Java] <span style="font-family: Arial,Helvetica;"> [|Megaputer] PolyAnalyst, TextAnalyst, WebAnalyst <span style="font-family: Arial,Helvetica;"> [|Natural Language Toolkit], Python libraries <span style="font-family: Arial,Helvetica;"> [|OpenNLP, center for NLP open source projects], including MaxEnt. <span style="font-family: Arial,Helvetica;"> [|Stanford Java NLP] <span style="font-family: Arial,Helvetica;"> [|VisualText Pro], free! <span style="font-family: Arial,Helvetica;"> [|WEBSOM for free-text browsing] <span style="font-family: Arial,Helvetica;"> [|WordStat text mining], works with QDA Miner <span style="font-family: Arial,Helvetica;"> [|Bixo open source web mining] toolkit. <span style="font-family: Arial,Helvetica;"> [|Visual Text 2 Pro] <span style="font-family: Arial,Helvetica;"> [|Text-Garden] - Text-Mining Software Tools
 * **Text Processing, retrieval, clusterization, classification**: ||

<span style="font-family: Arial,Helvetica;">[|Cognitive & Psychology Software] <span style="font-family: Arial,Helvetica;"> [|CTI Psychology: Software] <span style="font-family: Arial,Helvetica;"> [|Computers in Mental Health] <span style="font-family: Arial,Helvetica;">[|Repertory Grids] - Techwiki with many links to software <span style="font-family: Arial,Helvetica;">[|Software Archives in Psychology] <span style="font-family: Arial,Helvetica;"> [|Software for visual psychophysics] <span style="font-family: Arial,Helvetica;"> [|Tlearn] - Kim Plunkett and Jeff Elman | [|Walnut] - CALM, Hopfield, other | [|Rethinking Innateness]: A Connectionist Perspective on Development
 * **Psychology and cognitive science software**: ||

<span style="font-family: Arial,Helvetica;">[|Natural Language Software Registry] <span style="font-family: Arial,Helvetica;"> [|Neural Translator (EN-PL)] <span style="font-family: Arial,Helvetica;"> [|Some NLP tools]
 * **Linguistics**: ||

<span style="font-family: Arial,Helvetica;">[|CSLU Speech Tools], Spectrogram <span style="font-family: Arial,Helvetica;"> [|Speech Toys] <span style="font-family: Arial,Helvetica;"> Speech corpora: [|CSLU Corpora] | [|Linguistic Data Consortium] | Machine [|Readable Spoken English] Corpus
 * **Speech-related tools**: ||

<span style="font-family: Arial,Helvetica;">[|Attrasoft Neural Network Applications] - stock predictions, image classfication etc <span style="font-family: Arial,Helvetica;"> [|CodEc - Programs for Economics and Econometrics] <span style="font-family: Arial,Helvetica;"> [|ELSA, Econometrics Laboratory Software Archive (Berkeley)] <span style="font-family: Arial,Helvetica;"> [|LBS Model Building Software] <span style="font-family: Arial,Helvetica;"> [|Lista z NUMA] <span style="font-family: Arial,Helvetica;"> [|Reg-X, freeware] (Stephen Hall, LBS) <span style="font-family: Arial,Helvetica;"> [|Software from CTI Centre Economics] <span style="font-family: Arial,Helvetica;"> [|SORITEC], power tools for econometric and statistical analysis <span style="font-family: Arial,Helvetica;"> [|Winsolve] - package for solving nonlinear macroeconomic models
 * **Financial and econometric software**: ||

<span style="font-family: Arial,Helvetica;">[|free POPLOG], POP11, LISP, Prolog and ML. <span style="font-family: Arial,Helvetica;"> [|AITECH] (Katowice) [|RL-Glue, interconnecting reinforcement learning agents] and environments.
 * **Expert Systems and AI Software**: ||

<span style="font-family: Arial,Helvetica;">[|Comparison of classfication results] | [|Comparison of logical rules extracted from data] |
 * ==Datasets== ||

<span style="font-family: Arial,Helvetica;">[|CBMR list] of data sources - great list from WWW Virtual Library <span style="font-family: Arial,Helvetica;"> [|GMD Repository] and their <span style="font-family: Arial,Helvetica;"> [|ML-Net Data links] <span style="font-family: Arial,Helvetica;">[|RISE - Repository of online Information Sources] used in information Extraction tasks <span style="font-family: Arial,Helvetica;">[|Brain-Computer Interface] (BCI) competitions <span style="font-family: Arial,Helvetica;"> [|New UCI Machine Learning Repository] | [|old UCI] | [|unofficial copy in Torun] | [|UCI KDD Archive] | use http://ftp.ics.uci.edu/pub/machine-learning-databases/ instead of ftp!
 * **Lists of data sources**: ||
 * **Data**: ||

<span style="font-family: Arial,Helvetica;">[|TuneIT], Testing Machine Learning & Data Mining Algorithms - Automated Tests, Repeatable Experiments, Meaningful Results. <span style="font-family: Arial,Helvetica;"> [|ExpDB], experiment database, automatic comparison of results on various datasesets and algorithms. <span style="font-family: Arial,Helvetica;">[|CMU Artificial Intelligence Repository] <span style="font-family: Arial,Helvetica;"> [|CMU Machine Learning Repository][|DASL. The Data and (Statistical) Story Library] <span style="font-family: Arial,Helvetica;"> [|Bob Duin links to data] <span style="font-family: Arial,Helvetica;"> [|Data hub] (links to many data types) <span style="font-family: Arial,Helvetica;"> [|UCLA data] and their [|cases studies] <span style="font-family: Arial,Helvetica;"> [|List of benchmark data from Czestochowa] <span style="font-family: Arial,Helvetica;"> [|Data Mining Institute, Wisconsin], software and data [|KONECT, the Koblenz Network Collection] of large network datasets

<span style="font-family: Arial,Helvetica;">**Neuroscience data** <span style="font-family: Arial,Helvetica;">[|1000 connectom project] [|Autism Brain Imaging Data Exchange]

<span style="font-family: Arial,Helvetica;">**Bioinformatics data** <span style="font-family: Arial,Helvetica;"> [|Bacterial Genomes Functional Annotation Benchmark Dataset] <span style="font-family: Arial,Helvetica;"> [|Biologia molekularna (molecular biology)] <span style="font-family: Arial,Helvetica;"> [|Kent Ridge bioinformatics] | <span style="font-family: Arial,Helvetica;"> [|Expected Fold-Protein classes (DEF)] <span style="font-family: Arial,Helvetica;"> [|UPITT Cancer Gene Expression Data] (Pittsburg) <span style="font-family: Arial,Helvetica;"> [|Data and systematic comparison of results] (Leuven) <span style="font-family: Arial,Helvetica;"> [|Protein Folding prediction], 27 classes, multiple kernels. <span style="font-family: Arial,Helvetica;"> [|Stanford Microarray Database]

<span style="font-family: Arial,Helvetica;"> [|KEDRI, gene expressions (large zip file!)] <span style="font-family: Arial,Helvetica;"> [|Bladder Cancer Microarray data] (Leuven)

<span style="font-family: Arial,Helvetica;">**Time series**: [|Econometric data] (ELSA, Berkeley) | [|FinWeb Databases] | [|Financial Data Finder] | [|Global Financial Data] | [|Investment data collection](FTP) | [|Time Series Data Library] | [|Simple Time Series data] | <span style="font-family: Arial,Helvetica;"> [|Climate Modeling] data <span style="font-family: Arial,Helvetica;"> [|Census database, USA] <span style="font-family: Arial,Helvetica;"> [|DASL], The Data and Story Library (StatLib) <span style="font-family: Arial,Helvetica;"> [|DELVE - Data for Evaluating Learning in Valid Experiments] <span style="font-family: Arial,Helvetica;"> [|Dr. B's Wide World of Web Data] <span style="font-family: Arial,Helvetica;"> [|International Association for Statistical Computing] | [|datasets from IASC] | [|few links to IASC databases] <span style="font-family: Arial,Helvetica;"> [|IEEE Neural Networks Council Standards Committee], Working Group on Data Modeling Benchmarks <span style="font-family: Arial,Helvetica;"> [|National Space Science Data Center], NASA datasets) <span style="font-family: Arial,Helvetica;"> [|Statistical Reference Datasets] (NIST) <span style="font-family: Arial,Helvetica;"> [|StatLog datasets] (Portugal) [|Statlib], software and over 100 datasets

<span style="font-family: Arial,Helvetica;"> [|LLIAC datasets] (Portugal) <span style="font-family: Arial,Helvetica;"> [|SCDS - create your own syntethic data] <span style="font-family: Arial,Helvetica;"> [|SIMBAD astronomical database] <span style="font-family: Arial,Helvetica;"> [|Semi-supervised learning benchmarks] <span style="font-family: Arial,Helvetica;"> **Images:** <span style="font-family: Arial,Helvetica;"> [|Curvlets] | <span style="font-family: Arial,Helvetica;"> [|Waveatom transforms] | <span style="font-family: Arial,Helvetica;"> [|Rice wavelet toolbox] | <span style="font-family: Arial,Helvetica;"> [|Morphological Component Analysis] | <span style="font-family: Arial,Helvetica;"> [|SPARCO: sparse reconstruction algorithms toolbox] | <span style="font-family: Arial,Helvetica;"> [|Cytopathology] <span style="font-family: Arial,Helvetica;"> **Texts:** <span style="font-family: Arial,Helvetica;"> [|The Oxford Text Archive] <span style="font-family: Arial,Helvetica;">[|List of corpora] (from UC SD) <span style="font-family: Arial,Helvetica;"> [|Reuters-21578 Text Categorization Collection] | [|Reuters-21578 Test Collection] | [|Tools for Reuters-21578 Dataset] | <span style="font-family: Arial,Helvetica;"> [|Ohsumed data collection] <span style="font-family: Arial,Helvetica;"> [|Cytopathology] <span style="font-family: Arial,Helvetica;"> [|NIPS 2000 competition data] <span style="font-family: Arial,Helvetica;"> [|Algoval] - a system for evaluating algorithms on datasets. <span style="font-family: Arial,Helvetica;"> [|The Robotics Data Set Repository] [|SMS Spam] data

Last modification 18.03.2016, by [|Wlodzislaw Duch]; my [|local homepage]
 * Other pages: [|AI in IR] | [|AI & ML] | [|Computational Intelligence] | [|Cognitive Science] | [|Neuroscience and brains] | [|Software and data] | [|Science & Fringes] | [|Comparison of classfication results] | [|Logical rules extracted from data] | ||