Open Source Python Scientific/Engineering Software - Page 69

Software for speech research. It includes programs and libraries for signal processing, along with general purpose scientific libraries. Most of the code is in Python, with C/C++ supporting code. Also, contains code releases corresponding to publishe

As of August 2018 Spheral++ has moved to Github -- please see the current repository at https://github.com/jmikeowen/spheral We are leaving a frozen version here on SourceForge for historical reasons. Spheral++ provides a steerable parallel environment for performing coupled hydrodynamical & gravitational numerical simulations. Hydrodynamics and gravity are modelled using particle based methods (SPH and N-Body).

3D shape descriptor which explicitly captures the local geometry and encodes it using an efficient representation. Our method consists of multiple evolving fronts which are realized by a set of growing spheres on the surface.

This is an automatic spike detection program which takes account of probe geometry and produces a .mask file to be used with the new masked version of KlustaKwik. We recommend you use Python 2.6 or 2.7, e.g. a free academic version can be obtained from Entthought Python. The input files for SpiKeDeteKt are: .dat (raw data file) .probe (probe file, described below - user constructed) parameters.py (optional - otherwise it uses defaultparameters.py) SpiKeDeteKt outputs the following files: .fet.n (feature file) .mask.n (needed for using the new (masked) KlustaKwik) .clu.n (a trivial clue file where everything is put into a single cluster) .fmask.n (trial - float masks instead of binary, we are using this for testing masked KlustaKwik) .spk.n (spike file) .upsk.n (unfiltered spike waveform) .res.n (list of spike times) .xml (an xml file with all the parameters that can subsequently be used by neuroscope or klusters) .fil (highpass filtered data) .h5 (

SpikeyTree infers divergence times between populations that share a common history described by a tree. SpikeyTree assumes that the populations have been evolving under isolation, according to the Wright-Fisher with pure drift. SpikeyTree can use the Beta or the Beta with Spikes approximation to the allele frequency distribution under the Wright-Fisher. More details can be found in Tataru et al. Inference under a Wright-Fisher model using an accurate beta approximation If using this software in a publication, please cite the above article.

Spirit, a different way to write! You guide your mouse through streams of predicted words. As the intelligent agent learns your writing style, its predictions become more accurate. You can prime Spirit with the prose and poetry of any author!

The SplitDB project gives practitioners of statistical tools for inferring phylogenies a way to store, retrieve and visualize important properties, like convergence, of the overwhelmingly large resulting tree-sets produced by these tools.

Spree creates a social search community where everybody shares knowledge and benefits from other users' knowledge alike. The spree technology automatically channels user questions to competent fellow users who are willing to help.

Squere is a prokaryote genome annotation user-friendly software, with easy installer and graphical interface.

- 2D Stabilization in each slice of the stacks in time. - 3D Stabilization intravital imaging of all the stacks (including the dimension Z) - create the videos and the stabilized images in a new folder

En demonstratar av ett verktyg som simulerar åtgärder mot buller från järnväg.

The Stats Jam project is an extension to Mediawiki that allows users to embed database queries and visualisations into their wiki pages.

Implements a stepped state machine, i.e. a state machine which executes a single state transition at a time. Because of this, no data, e.g. state data, can be stored between executions. Instead, any such data must be stored in persistent storage between executions. This permits operation of the state machine as a CGI program in a web server. A WSGI or fastCGI or other such web server is not required. Received symbols may be received from sources outside the state machine, or may be generated internally by the state functions.

We present a modeling framework aimed at capturing both the positional and temporal behavior of transcriptional regulatory proteins. There is growing evidence that transcriptional regulation is the complex behavior that emerges not solely from the individual components, but rather from their collective behavior, including competition and cooperation. Our framework describes individual regulatory components using generic action oriented descriptions of their biochemical interactions with a DNA sequence. All the possible actions are based on the current state of factors bound to the DNA. We developed a rule builder to automatically generate the complete set of biochemical interaction rules for any given DNA sequence. Off-the-shelf stochastic simulation engines can model the behavior of a system of rules and the resulting changes in the configuration of bound factors can be visualized.

Graphical or terminal-based stopwatch with many user-named lap timers. Save / restore timing results via CSV file; timer "runs" even when application isn't running! Supports lap timer label templates. Hildonized (i.e., also runs on Maemo / Nokia 770).

StormSiren is an Internet application that allows individuals to receive alert notifications via Email, SMS, Jabber Instant Messaging, playing sound files, external program execution, MythTV visual alerts, and OSD (On Screen Display) visual alerts of wea

StrATo (Strain Analysis Tool) loads GE Vingmed heart strain value reports file and performs a statistical peak analysis and curve uniformity evaluation, cutting off sampled noise, plotting results and offering a printout to attach in medical reports.

StreamAlert is a serverless, real-time data analysis framework that empowers you to ingest, analyze, and alert on data from any environment, using data sources and alerting logic you define. Computer security teams use StreamAlert to scan terabytes of log data every day for incident detection and response. Incoming log data will be classified and processed by the rules engine. Alerts are then sent to one or more outputs. Rules are written in Python; they can utilize any Python libraries or functions. Merge similar alerts and automatically promote new rules if they are not too noisy. Ingested logs and generated alerts can be retroactively searched for compliance and research. Serverless design is cheaper, easier to maintain, and scales to terabytes per day. Deployment is automated, simple, safe and repeatable for any AWS account. Secure by design, least-privilege execution, containerized analysis, and encrypted data storage.

Small Python programs for the structural designer / Pequeños programas para el diseñador de estructuras hechas en Python

CISTS seeks to assist Civil Engineers in the analysis of beams, their loads, and properties.

Sudsy is a saponification calculator coded in Python. The CLI works fine, but the PyGTK version still needs some work...The interface is designed and it starts up, but some of the callbacks still need to be implemented. Let me know if you can help.

Tools and programs I have written for various purposes and those used in it.

SunlightDPD provides a home for open source codes related to the dissipative particle dynamics (DPD) simulation method. Currently the file release contains the HNC integral equation code.

SunlightLB is an open-source 3d lattice Boltzmann code which can be used to solve a variety of hydrodynamics problems, including passive scalar transport problems.

idyuts is \"I Dare You to Use This Shell\"; a pre-hibernate approach to replacing an ORM written with jython functors into a pure-Java language command pattern. The \"pipeline codegen artifacts\" are simple IoC templates, and trivial to adapt