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.
The Scalable Assembler at Notre Dame (SAND) replaces the early stages of the Celera Assembler with scalable versions that can run on collections of commodity computers. By harnessing clusters, clouds, grids, or just random machines in your office, many bioinformatics tasks can be reduced from weeks or months down to minutes or hours.
Gerbil consists of an interactive visualization tool targeted at multispectral and hyperspectral image data, and a toolbox of common algorithms, e.g. for segmentation. Multispectral imaging has been gaining popularity and has been gradually applied to many fields besides remote sensing. However, due to the high dimensionality of the data, both human observers and computers have difficulty interpreting this wealth of information. Gerbil facilitates the visualization of the relationship between spectral and topological information in a novel fashion. It puts emphasis on the spectral gradient, which is shown to provide enhanced information for many reflectance analysis tasks. It also includes a rich toolbox for evaluation of image segmentation and other algorithms in the multispectral domain. The parallel coordinates visualization technique is combined with hashing for a highly interactive visual connection between spectral distribution, spectral gradient, and topology.
Makeflow is a workflow engine for executing large complex applications on clusters, clouds, and grids. It can be used to drive several different distributed computing systems, including Condor, SGE, and the included Work Queue system. It does not require a distributed filesystem, so you can use it to harness whatever collection of machines you have available. It is typically used for scaling up data-intensive scientific applications to hundreds or thousands of cores.
GPlates offers a novel combination of interactive plate-tectonic reconstructions, geographic information system (GIS) functionality, and raster data visualization. GPlates enables both the visualization and the manipulation of plate-tectonic reconstructions and associated geological, geophysical, and paleo-geographic data through geological time.
PyCAM generates toolpaths (GCode) for CNC machines out of 3D STL model files or 2D gravure contour files (SVG or DXF). The output of PyCAM can be imported into EMC2 or other machine controllers to direct the milling machine. PyCAM features different path generation strategies, cutter shapes, and post-processing options.
SLD Calculator is a GUI to calculate the characteristics of chemical compounds, especially the Neutron and X-Ray scattering length densities that are often required to know in scattering experiments. Furthermore, it offers internationalization support and is capable of switching the language at runtime.
iLAP (Laboratory data management, Analysis, and Protocol development) is a workflow-driven information management system specifically designed to create and manage experimental protocols and to analyze and share laboratory data. The system combines experimental protocol development, wizard-based data acquisition, and high-throughput data analysis into a single, integrated system.