Open Source Python Scientific/Engineering Software - Page 13

Toast++ is a C++ software package for modelling light transport in scattering media using the finite element method. It allows 3D reconstruction of absorption and scattering distributions inside an object from boundary measurements of light transmission, using steady state, time domain or frequency domain information. Matlab and Python bindings exist for ease of use and fast prototyping.

ViReMa (Viral Recombination Mapper) detects and reports recombination or fusion events in virus genomes using deep sequencing datasets. Feb 2014 - Our paper (Open Access) is available at Nucleic Acids Research: "Discovery of functional genomic motifs in viruses with ViReMa–a Virus Recombination Mapper–for analysis of next-generation sequencing data" http://nar.oxfordjournals.org/content/42/2/e11 This is an on-going project and updates will be regularly posted. Please get in touch with any questions, problems or suggestions.

Viewmol is a graphical front end for computational chemistry programs. It is able to graphically aid in the generation of molecular structures for computations and to visualize their results.

A python-based system to diagnosis and make weather maps (wxmap) of numerical weather prediction models using the Grid Analysis and Display System (GrADS) from opengrads.org

The FAS method enables the systematic and partially automated creation of functional architectures from use cases. This platform-independent software for Python supports the needed automation via the SysML v2 REST API. To get started, download the zipped release, unzip it, and follow the instructions provided via FAS4SysMLv2_InstallationAndUse.txt in the extracted folder. It may also be helpful to watch the video you find under "Project Samples", further below on this SourceForge page.

Moodss is a modular monitoring application, composed of a GUI and a daemon, which supports any device or process for which a module can be developed. Complete dashboards with graphical viewers, thresholds, SQL database archiving, ... can be managed.

naga EDA devotes to provide useful electronic design tools in C++ and, especially, Python. The current release contains naga.Verilog, a Verilog parser. Please visit project homepage http://naga-eda.org for more information

pyQPCR is a GUI application written in python that deals with quantitative PCR (QPCR) raw data. Using quantification cycle values extracted from QPCR instruments, it uses a proven and universally applicable model to give finalized quantification resu

Update - SRST2 Now Available ------ 25 Sep, 2013 This project has now been replaced by SRST2 - Short Read Sequence Typing for Bacterial Pathogens, available at http://katholt.github.io/srst2/ The new SRST2 program does gene typing as well as MLST (e.g. typing resistance genes, virulence genes, etc). SRST2 is faster and more accurate than the old SRST, using bowtie2 to achieve local alignments (no need for flanking sequences) and a brand new scoring system.

This is a sophisticated & integrated simulation and analysis environment for dynamical systems models of physical systems (ODEs, DAEs, maps, and hybrid systems). It supports symbolic math, optimization, continuation, data analysis, biological apps...

FreeBlockSim is a graphical block diagram editor/simulator for use with FreeSim++. FreeSim++ is a free to use C++ block library for dinamical systems simulation. Available soon on www.estudios-electricos.com

CAMFR (CAvity Modelling FRamework) is a fast, flexible, friendly full-vectorial Maxwell solver. Although it can tackle general electromagnetic problems, its main focus is on applications in the field of photonics.

Read single-band NASA PDS (Planetary Data System) Image files in Python. Query header information and extract binary image data in a format suitable for PIL (Python Imaging Library). Works for Pathfinder and Mars Exploration Rover images, maybe others.

PyEPL (Python Experiment-Programming Library) is a library for coding psychology experiments in Python. It supports presentation of both visual and auditory stimuli, and supports both manual (keyboard/joystick) and sound (microphone) input as responses.

This project delivers Linux support (USB driver and Tools) for a Digital Signal Processor (DSP) cards of the Signal Ranger series, see http://www.softdb.com/product_dsp.shtml for details) connected to a Linux host via USB.

ThanCad is a 2dimensional cad, with limited 3d support and raster inclusion capability and emphasis in engineering. It is being written in Python and since it uses the Tkinter library, it is platform independent.

Tinybldlin is a GNU/Linux port written in python for Tiny PIC Bootloader (tinybldWin.exe) for Microchip PIC microcontrollers.

Open-source Python software library and GUI desktop environment for direct bioinformatic analysis of mass-spectrometry data through powerful scripting tools and interfaces to many machine data formats, database search engines, and peptide data formats. For a copy of the source code, check out our Github repositories: mzDesktop: https://github.com/MaxAlex/mzDesktop multiplierz: https://github.com/MaxAlex/multiplierz

A windrose, also know as polar rose plot, is a special diagram for representing the distribution of meteorological datas, typically wind speeds by class and direction.

ExcelPython is a lightweight, easily distributable library for interfacing Excel and Python. It enables easy access to Python scripts from Excel VBA, allowing you to substitute VBA with Python for complex automation tasks which would be facilitated by Python's extensive standard library. v2 is a major rewrite of ExcelPython! - see GitHub site for more details. LICENSE NOTICE MIT License, please see new GitHub site for more details. Copyright 2012-2014 by Eric Reynolds.

MSTParser is a non-projective dependency parser that searches for maximum spanning trees over directed graphs. Models of dependency structure are based on large-margin discriminative training methods. Projective parsing is also supported. mstparser 0.5.1 is now available via Maven Central. If you use Maven as your build tool, then you can add it as a dependency in your pom.xml file: <dependency> <groupId>net.sourceforge.mstparser</groupId> <artifactId>mstparser</artifactId> <version>0.5.1</version> </dependency>

Modelio-Open is a project hosting a set of open source extensions (SoaML, SysML and UML Testing Profile) for a previous version (1.2) of the Modelio Free tool . Currently, the lastest version (2.x) of Modelio modeling and generation tool is available at http://modelio.org/downloads/download-modelio.html. All extensions are downloadable at http://forge.modelio.org/projects.

A python gear generator that serves as CAE/CAD-preprocessor for involute gears based on pythonOCC. It allows for the computation of dynamic properties and the creation of exact geometries from a minimal input set. PyGear can simulate the tool geometry and kinematics of standard gear hobbing tools to generate precise flank, tooth root and tip geometries.

AVPython embeds the Python programming language within ArcView GIS 3.x. This project will also encompass efforts to build a similar bridge between Python and ArcObjects. An integrated, redistributable Python / PyWin32 setup wizard is also published here.

BKWSimX ist eine kostenlose Simulationssoftware zur Planung und Wirtschaftlichkeitsbewertung steckerfertiger PV-Anlagen – ideal für Balkonkraftwerke mit oder ohne Speicher. Die Software erlaubt es, reale Standortdaten, Hardwarekomponenten und individuelle Lastprofile zu kombinieren, um den Eigenverbrauch, Jahresertrag und die Amortisation exakt zu berechnen. Die Benutzeroberfläche ist intuitiv gestaltet und erlaubt u. a. die Simulation mehrerer PV-Generatoren mit eigener Ausrichtung und Verschattung, den Vergleich unterschiedlicher Speichersysteme sowie die Berücksichtigung aller üblichen Verlustfaktoren. BKWSimX basiert auf Python, nutzt reale Wetterdaten der Europäischen Kommission (PVGIS) und richtet sich an alle, die fundierte Entscheidungen rund um ihre eigene PV-Anlage treffen möchten.