Erudite is an application for training and testing back propogation neural networks using the ANNeML (Artifical Neural Network Markup Language) XML format. It supports testing and training neural nets with CSV files and has support for randomized training sets, optional adapting learning rate, sigmoid or hyperbolic tangent transfer functions, optional bias and weight adjustment locking, and more.
Salad (short for Letter Salad) is an efficient and flexible implementation of the well-known anomaly detection method Anagram by Wang et al. (RAID 2006). Salad is based on n-gram models, that is, data is represented as all of its substrings of length n. During training these n-grams are stored in a Bloom filter. This enables the detector to represent a large number of n-grams in little memory and still being able to efficiently access the data. Salad extends Anagram by allowing various n-gram types, a 2-class version of the detector for classification, and various model analysis modes.
iNA is a computational tool for quantitative analysis of fluctuations in biochemical reaction networks. Such fluctuations, also known as intrinsic noise, arise due to the stochastic nature of chemical reactions and cannot be ignored for when some molecules are present only in very low copy numbers as is the case in living cells. The SBML-based software computes statistical measures such as means and standard deviations of concentrations within a given accuracy using the analytical system size expansion. The result of iNA’s analysis can be tested against the computationally much more expensive stochastic simulation algorithm.
h5tools provides third-party tools for working with data where the underlying storage object is HDF5. The toolkit currently has two utilities in it: The HDF5 NeXus writer API is a set of functions which allows writing data in the NeXus data format, using only HDF5 function calls. H5merge will merge any two HDF5 or NetCDF4 files.
Open Grid Scheduler/Grid Engine is a batch-queuing system for distributed resource management. It is used by many high-performance clusters and computation farms. Together with basic batch job scheduling, it supports advance reservation, array jobs, parallel make, parallel job management, and GPU management.
Chebfun is a collection of algorithms and a software system in object-oriented MATLAB that extends familiar powerful methods of numerical computation involving numbers to continuous or piecewise-continuous functions. It also implements continuous analogues of linear algebra notions like the QR decomposition and the SVD, and solves ordinary differential equations. The mathematical basis of the system combines tools of Chebyshev expansions, fast Fourier transform, barycentric interpolation, recursive zerofinding, and automatic differentiation.
Son of Grid Engine is a highly-scalable and versatile distributed resource manager for scheduling batch or interactive jobs on clusters or desktop farms. It is a community project to continue Sun's Grid Engine. It is competitive against proprietary systems and provides better scheduling features and scalability than other free DRMs like Torque, SLURM, Condor, and Lava.
Fuzzy machine learning framework is a library and a GUI front-end for machine learning using intuitionistic fuzzy data. The approach is based on the intuitionistic fuzzy sets and the possibility theory. Further characteristics are fuzzy features and classes; numeric, enumeration features and features based on linguistic variables; user-defined features; derived and evaluated features; classifiers as features for building hierarchical systems; automatic refinement in case of dependent features; incremental learning; fuzzy control language support; object-oriented software design with extensible objects and automatic garbage collection; generic data base support through ODBC; text I/O and HTML output; an advanced graphical user interface based on GTK+; and examples of use.