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This project is discontinued. If you would like to take on the maintenance, please contact me at https://mastodon.social/deck/@mrtmd
Open Bioprocess Monitor aims to be open source remote monitoring system for bioreactors. System (written in php) can display all available data in a web browser. Currently system has been built as a proof of concept for educational purposes.
JUNG provides a common and extendible language for the modeling, analysis, and visualization of data that can be represented as a graph or network.
New version now available on GitHub: https://github.com/jrtom/jung/releases/tag/jung-2.1
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HOT is a package of Matlab and Octave compatible functions that manage thermodynamic data for a wide range of species. Functions calculate almost all the most common thermodynamic quantities of mixtures.
Python users may also want to look at PYroMat at https://chmarti1.github.io/PYroMat/index.html
Taverna is *no longer* hosted on SourceForge, but has moved to the Apache Software Foundation: https://taverna.apache.org
These pages and mailing list archives are provided for *archival purposes* for older Taverna 1.x releases.
See https://taverna.apache.org/download/ for the latest releases from Apache Taverna.
RADAR stands for Rapid Automatic Detection and Alignment of Repeats in protein sequences. RADAR identifies gapped approximate repeats and complex repeat architectures involving many different types of repeats.
Radar has moved to github (https://github.com/AndreasHeger/radar)
This project is no longer hosted on sourceforge, please go to https://github.com/jodersky/sims instead.
A library for rigid body simulation written in Scala. This project was created under the terms of a one-year project at school (Gymnase de Burier). Another program for testing and visualizing SiMS, Graphyx, is included.
JAMBLAST: Java Application Manager for the ncbi BLAST results. It is a graphic application that allow the user to display, filter, sort, import/export, store/manage BLAST results produced with the NOBLAST (https://sourceforge.net/projects/noblast).
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* Note: The Google Maps V2 API used by this module has been deprecated. *
For V3, consider pygeocoder: https://pypi.python.org/pypi/pygeocoder
Easy-to-use Python wrapper for the Google Maps V2 and Local Search APIs. Provides geocoding, reverse geocoding, directions, and local search.
This Project moved to https://sourceforge.net/projects/synbiowave/ because the name GeneWave is a registered trademark... Please do not use this project anymore.
A project to help students calculate symbolic derivatives and integrals. Plus, a Java expression tree library for developers who may need to do such things in their programs.
The project has moved to github: https://github.com/generalpenguin89/calchelper
A novel stochastic simulation environment for biochemical modeling
UPDATE(2017-07-24) This repository has moved to BitBucket: https://bitbucket.org/parkinsonlab/cell-2017
Cell++ is a novel stochastic simulation environment which is capable of modeling diverse biochemical phenomena including signal transduction pathways, metabolic pathways and intracellular calcium signaling.
Netlist database and manipulation API with interfaces to Java and Ruby. Verilog netlist inputs are supported.
Project branch continues to evolve: https://github.com/gburdell/nldb
including addition of tclsh UI.
NOTE: labrad development has moved to github. You can find up-to-date versions of labrad servers at https://github.com/martinisgroup/servers
This project contains a number of LabRAD Modules that provide out-of-the-box basic functions like hardware interfacing (GPIB, HID, RS232, IEEE802.3, ...), instrument control (Wiimote ;)), data storage, on-the-fly data plotting and analysis, etc.
TaxonX is an XML schema for encoding taxonomic treatments to: create open, persistent full digital surrogates of treatments; identify treatments and their major structures; identify textual data such as names, localities, characters, and citations
Maintenance of TaxonX has moved to: https://github.com/tcatapano/TaxonX
Main source code is moved at https://github.com/jpahullo/planetsim. We recommend authors of contributions sections to move your code to github. Since then, contributions remain here for your use at will.
PlanetSim is an object oriented simulation framework for overlay networks and services. This framework presents a layered and modular architecture with well defined hotspots documented using classical design patterns.
MOVED TO GITHUB!! https://github.com/cmwslw/nxt-plus-plus
NXT++ is an interface written in C++ that allows the control LEGO MINDSTORMS NXT robots directly through a USB or Bluetooth connection. The interface is intended to be simple and easy to use. The interface can be used in any C++ program.
ScapeToad is an easy to use application for the cartogram creation. Cartograms are deformed maps where the polygon size is proportional to a given statistical value. ScapeToad reads and writes Shapefiles.
See <https://github.com/christiankaiser/ScapeToad> for the latest version of the code.
A Python IDE optimized for scripting and easy access to documentation.
Not a whole lab, just a small bench !
**Feel free to contact me via https://sourceforge.net/sendmessage.php?touser=1865508 if you want to take over this project**
Mathbench is intended for the development of short scripts such as those daily used when doing research in applied mathematics and physics. Simple widgets and a strong plugin system make it useful and extensible.
ANNOUCEMENT:
Mathbench's purpose is still relevant and could also benefit from the latest improvements of the wxPython toolkit. ...
This project moved to https://forge.ocamlcore.org/projects/ocaml-mindstorm/ OCaml-mindstorm is a library that enables you to drive Lego mindsotrm NXT bricks from OCaml. Communication with the NXT brick is done through bluetooth.