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.
G-Code Ripper reads g-code, scales, and rotates and/or splits the tool paths before outputting the modified tool path data to a new g-code file. It evaluates g-code expressions and parameters and interprets YZ and ZX arcs. YZ and ZX arcs are internally converted to linear motions for compatibility with splitting and rotation.
PyParticles is a particle simulation toolbox entirely written in Python. It simulates a particle-by-particle model with the most popular integrations methods, including Euler, Runge Kutta, and Midpoint. It represents the results on an OpenGL or Matplotlib plot, and offers an easy-to-use API.
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.