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Revision as of 14:35, 22 March 2014
Description  Homepage  

Apophenia  'Apophenia' is a statistical library for C. It provides functions on the same level as those of the typical stats package (OLS, probit, singular value decomposition, &c.) but doesn't tie the user to an ad hoc language or environment. It uses the GNU Scientific Library for number crunching and SQLite for data management, so the library itself focuses on model estimation and quickly processing data.  http://apophenia.info  GPLv2 GPLv2orlater 
Autoclass  AutoClass solves the problem of automatic discovery of classes in data (sometimes called clustering or unsupervised learning), as distinct from the generation of class descriptions from labeled examples (called supervised learning). It aims to discover the 'natural' classes in the data. AutoClass is applicable to observations of things that can be described by a set of attributes, without referring to other things. The data values corresponding to each attribute are limited to be either numbers or the elements of a fixed set of symbols. With numeric data, a measurement error must be provided.  http://icwww.arc.nasa.gov/ic/projects/bayesgroup/autoclass/  PublicDomain 
Bc  'Bc' is an arbitrary precision numeric processing language. Its syntax is similar to C, but differs in many substantial areas. It supports interactive execution of statements. 'Bc' is a utility included in the POSIX P1003.2/D11 draft standard. This version does not use the historical method of having bc be a compiler for the dc calculator (the POSIX document doesn't specify how bc must be implemented). This version has a single executable that both compiles the language and runs the resulting 'byte code.' The byte code is not the dc language.  https://www.gnu.org/software/bc/  GPLv2orlater 
Clana  clana is a library of modular utilities for reasonably high performance data analysis & visualization using Common Lisp. (Reasonably means I have to be able to use it for analyzing particle accelerator data). The library is made of various sublibraries and is designed in a very bottomup way so that if you don't care about some feature you don't have to load it.
The functionality support so far are

https://github.com/ghollisjr/clana  GPLv3 
Dap  Dap is a small statistics and graphics package, based on C, that provides core methods of data management, analysis, and graphics commonly used in statistical consulting practice. Anyone familiar with basic C syntax can learn Dap quickly and easily from the manual and the examples in it. Advanced features of C are not necessary, although they are available. As of Version 3.0, Dap can read SBS programs, thereby freeing the user from having to learn any C at all to run straightforward analyses. The manual contains a brief introduction to the C syntax needed for Cstyle programming for Dap. Because Dap processes files one line at a time, rather than reading entire files into memory, it can be, and has been, used on data sets that have very many lines and/or very many variables.  https://www.gnu.org/software/dap  GPLv2orlater 
Data Frame  In the R language, a dataframe object is a way to group tabular data. The functions in this package allow the manipulation of data in a similar way in Octave. Dataframe objects in Octave can be created in a variety of ways (from other objects or from tabular data in a file) and then can be accessed either as matrix or by column name. This Octave addon package is part of the OctaveForge project.  http://octave.sourceforge.net/dataframe/  GPLv3orlater 
DataStatix  DataStatix is a free software for GNU/Linux and Windows useful to manage data of every kind (although it has been written to manage biomedical data), to create descriptive statistics and graphs and to export items easily to R environment or to other statistic softwares. In order to handle properly big amount of data and many concurrent users, DataStatix works with MySql database and it has been developed and tested with MySql community edition 5.5.
Some features of the software are: users management (create, delete, modify password) within the software; different users levels of data access (administrator, default, read only); user defined templates (models) of data, to create new databases easily; importation and esportation of data in CSV format (used also by Calc and Excel); updating of existing data from a CSV file created with DataStatix; descriptive statistics from every data (some more kind of statistics to come); graphs from every data. 
https://sites.google.com/site/datastatix/  GPLv3 
Datamash  Datamash is a commandline program which performs basic numeric, textual and statistical operations on input textual data files. it is designed to be portable and reliable, and aid researchers to easily automate analysis pipelines, without writing code or even short scripts.  http://www.gnu.org/software/datamash  GPLv3orlater 
Dinrhiw2  Primary aim of the dinrhiw is to be linear algebra library and machine learning
library. For this reason dinrhiw implements PCA and neural network codes. Currently, the neural network code only supports:

https://github.com/cslr/dinrhiw2  GPLv3 
KNIME  KNIME [naim] is a userfriendly graphical workbench for the entire analysis process: data access, data transformation, initial investigation, powerful predictive analytics, visualisation and reporting. The open integration platform provides over 1000 modules (nodes), including those of the KNIME community and its extensive partner network.  http://www.knime.org  GPLv3 with exception 
MLPACK  MLPACK is a C++ machine learning library with emphasis on scalability, speed, and easeofuse. Its aim is to make machine learning possible for novice users by means of a simple, consistent API, while simultaneously exploiting C++ language features to provide maximum performance and flexibility for expert users. MLPACK contains the following algorithms: Collaborative Filtering, Density Estimation Trees, Euclidean Minimum Spanning Trees, Fast Exact MaxKernel Search (FastMKS), Gaussian Mixture Models (GMMs), Hidden Markov Models (HMMs), Kernel Principal Component Analysis (KPCA), KMeans Clustering, LeastAngle Regression (LARS/LASSO), Local Coordinate Coding, LocalitySensitive Hashing (LSH), Logistic regression, Naive Bayes Classifier, Neighbourhood Components Analysis (NCA), Nonnegative Matrix Factorization (NMF), Principal Components Analysis (PCA), Independent component analysis (ICA), RankApproximate Nearest Neighbor (RANN), Simple LeastSquares Linear Regression (and Ridge Regression), Sparse Coding, Treebased Neighbor Search (allknearestneighbors, allkfurthestneighbors), Treebased Range Search.  http://mlpack.org  LGPLv3orlater 
Mastrave  Mastrave is a free software library written to perform vectorized scientific computing and to be as compatible as possible with both GNU Octave and Matlab computing frameworks, offering general purpose, portable and freely available features for the scientific community. Mastrave is mostly oriented to ease complex modeling tasks such as those typically needed within environmental models, even when involving irregular and heterogeneous data series.
Semantic array programming The Mastrave project attempts to allow a more effective, quick interoperability between GNU Octave and Matlab users by using a reasonably well documented wrap around the main incompatibilities between those computing environments and by promoting a reasonably general idiom based on their common, stable syntagms. It also promotes the systematic adoption of datatransformation abstractions and lightweight semantic constraints to enable concise and reliable implementations of models following the paradigm of semantic array programming. There are a couple of underlying ideas: library design is language design and vice versa (Bell labs); language notation is definitely a "tool of thought" (version), in the sense that there is a feedback between programming/mathematical notation and the ability to think new scientific insights. And perhaps ethic ones.
Mastrave is free software, which is software respecting your freedom. As many other free scientific software packages, it is offered to the scientific community to also promote the development of a free society more concerned about cooperation rather than competitiveness, heading toward knowledge and culture freedom. Such a vision implies the possibility for motivated individuals to freely access, review and contribute even to the cuttingedge academic culture. This possibility relies on the development of tools and methodologies helping to overcome economic, organizational and institutional barriers (i.e. knowledge oligopolies) while systematically promoting reproducible research. This is a longterm goal to which the free software paradigm can and has been able to actively cooperate. 
http://mastrave.org  GPLv3orlater 
Mcsim  MCSim is a simulation and statistical inference tool for algebraic or differential equation systems. While other programs have been created to the same end, many of them are not optimal for performing computer intensive and sophisticated Monte Carlo analyses. MCSim was created specifically to perform Monte Carlo analyses in an optimized, and easy to maintain environment.  https://www.gnu.org/software/mcsim/  GPLv3orlater 
MedianTracker  MedianTracker supports efficient median queries on and dynamic additions to a list of values. It provides both the lower and upper median of all values seen so far. Any __cmp__()able object can be tracked, in addition to numeric types. add() takes log(n) time for a tracker with n items; lower_median() and upper_median() run in constant time. Since all values must be stored, memory usage is proportional to the number of values added (O(n)).  http://mediantracker.sourceforge.net/  Expat 
Opennn  OpenNN is a class library written in C++ which implements neural networks.
The library is intended for advanced users, with high C++ and machine learning skills. OpenNN provides an effective framework for the research and development of data mining and predictive analytics algorithms and applications. OpenNN is based on the most popular neural network model, the multilayer perceptron. The package comes with unit testing, many examples and extensive documentation. The library has been designed to learn from data sets. Some typical applications here are function regression (modelling), pattern recognition (classification) and time series prediction (forecasting). OpenNN is being developed by Intelnics, a company specialized in the development and application of neural networks. 
http://www.intelnics.com/opennn  LGPLv3 
OptionMatrix  These calculators are realtime multimodel option chain pricers with analytics and interactive controls. optionmatrix is the GTK+ graphical user interface version and optionmatrix_console is the Curses version. Both programs feature: greeks, decimal date to realdate translations, realdate to decimal date translations, realtime time bleeding, configurable option expiration date engines, calendars, strike control systems, tickers and over 168+ option models. optionmatrix also supports: spreads, bonds, term structures, cash flow editing, source code viewing and text exporting.  http://sourceforge.net/projects/optionmatrix/?source=directory  GPLv3orlater 
Orange  Orange is a GPL visual programming software suite, featuring widgets for interactive data visualization, statistical data analysis, machine learning, text mining, association rules and frequent pattern ming, data fusion, and data mining in general.  http://orange.biolab.si  GPLv3orlater 
Papertrail  Papertrail is a Ballot Counting Software. It helps scanning and counting regular paper ballots as known from common election situations. It is Free Software, licensed via the GPLv3, to make the election process as dependable as possible, but speeding up the manual counting process a lot.  http://antcom.de/papertrail  GPLv3orlater 
Ploticus  Produces fullcolor lineplots, bargraphs, histograms, scatterplots, pie graphs, rangebars, boxplots, tables, tabular plots etc. Many labeling and style features. Produce graphs for publications, slides, posters, web pages and intranets. Plots from tabular data sets. Handles numeric, date, time, and alphanumeric data. Scriptdriven, noninteractive. Can render in Postscript, PNG, GIF, or X11.  http://ploticus.sourceforge.net/  GPLv2orlater 
Plotutils  The GNU plotutils package contains software for both programmers and technically oriented users. Its centerpiece is the libplot/libplotter, a C/C++ function lib for exporting 2D vector graphics in many file formats (including WebCGM format, recommended by the graphics Activity of the W3 Consortium). It can also do vector graphics animations, has threadsafe APIs, and supports the use of Posix threads (if available). The program also contains the following commandline programs for plotting scientific data:

http://www.gnu.org/software/plotutils  GPL 
PredictionIO  PredictionIO is a free software Machine Learning server system. It enables developers and data engineers to build smarter web and mobile applications through a simple set of APIs. Admin UI is provided for developers to select and tune algorithms.  http://prediction.io  AGPLv3 
Pspp  PSPP is a program for statistical analysis of sampled data. It is a free software replacement for IBM SPSS.
It is a powerfull tool which can be used for exploratory data analysis, hypothesis testing, data preprocessing and visualisation. Available procedures include ttest, anova, linear and logistic regression, nonparametric tests, factor analysis, principle components analysis, cluster analysis, receiver operating characteristic and many more. It can be used either with a command line or graphical user interface. 
https://www.gnu.org/s/pspp/  GPLv3orlater 
PuffinPlot  PuffinPlot is a userfriendly, crossplatform program which analyses and plots palaeomagnetic data. It provides several plot types and analysis functions commonly used in palaeomagnetism, userconfigurable graph layout, CSV data export, and SVG and PDF graph export. It has facilities for both interactive and bulk analysis, and can also be controlled and extended using any JVMbased scripting language (including Python). PuffinPlot is written in Java.  http://puffinplot.bitbucket.org/  GPLv3orlater 
PyChem  The purpose of this software is to provide a simple to install and easy to use graphical interface to multivariate algorithms. The package currently supports: storage of supporting experimental data (metadata); data preprocessing; principal components analysis (PCA); discriminant function analysis (DFA,CVA,LDA,DA); cluster analysis; partial least squares regression (PLSR, PLS1); genetic algorithm (GA) based variable selector coupled to PLS and DFA. 
http://fruitcake.mib.man.ac.uk/pychem/  GPLv2orlater 
Sage  SAGE is a framework for number theory, algebra, and geometry computation that is initially being designed for computing with elliptic curves and modular forms. The longterm goal is to make it much more generally useful for algebra, geometry, and number theory. SAGE provides a (Python) interpreter interface to several important C/C++ libraries:

http://www.sagemath.org  GPLv2 
SalStat  SalStat is an small application for the statistical analysis of scientific data (with a special concentration on psychology). It can already do 18 kinds of descriptive statistics, t tests (paired, unpaired and one sample), 3 kinds of correlations linear regression and point biserial tests, and single factor anova (both within and between subjects). Data is entered on an easytouse datagrid like a spreadsheet, and all the analyses are driven by menus and dialog boxes. Output can be formatted to HTML.  http://salstat.sourceforge.net/  GPLv2orlater 
Statist  Statist is a small and portable statistics program written in C. It is terminalbased, but can utilise GNUplot for plotting purposes. It is simple to use and can be run in scripts. Big datasets are handled reasonably well on small machines.  http://wald.intevation.org/projects/statist/  GPLv2orlater 
StatistX  StatistX is a GUI frontend for the statistics program statist. Currently, it provides about 20 different statistical tests and regressions. Results are presented either as text or Gnuplot graphs. It is not intended to replace tools like R.  http://www.usf.uniosnabrueck.de/~abeyer/private/StatistX/  GPLv2orlater 
Statlib  The goal of the project is to combine several python statistics modules into a single package.  http://code.google.com/p/pythonstatlib/  PublicDomain Expat 
TensorFlow  TensorFlow™ is an open source software library for numerical computation using data flow graphs. Nodes in the graph represent mathematical operations, while the graph edges represent the multidimensional data arrays (tensors) communicated between them. The flexible architecture allows you to deploy computation to one or more CPUs or GPUs in a desktop, server, or mobile device with a single API. TensorFlow was originally developed by researchers and engineers working on the Google Brain Team within Google's Machine Intelligence research organization for the purposes of conducting machine learning and deep neural networks research, but the system is general enough to be applicable in a wide variety of other domains as well.  https://www.tensorflow.org/  Apache2.0 
Vilno  A fullfeatured statistics package needs data preparation software, to manipulate data and prepare data for analysis. This software package, called Vilno, is data transformation software. It can be used instead of the SAS datastep for data transformation. It can be used to clean and prepare data before importing the derived data into R ( a statistics package using the S programming language ).  http://code.google.com/p/vilno  GPLv2 
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