Brain imaging software produced by the Brain Research Imaging Centre of The University of Edinburgh.
A software package that implements the probabilistic record linkage technique (PRL). This is a new, improved, open-source, multi-platform version of the previously available program, by the same authors.
Kactus2 is a graphical EDA tool based on the IP-XACT standard.
Kactus2 is a toolset for IP-XACT based SoC design and provides packaging, integration and configuration of HW and SW components, plus register design and HDL import and generation. The source code is hosted at https://github.com/kactus2/kactus2dev. An example IP library is available at https://github.com/kactus2/ipxactexamplelib Video tutorials are available at https://www.youtube.com/user/Kactus2Tutorial Issue tracker is available at https://kactus2.cs.tut.fi Help us improve Kactus2 and give us feedback at http://funbase.cs.tut.fi/feedback For publications, kindly use this reference: http://joss.theoj.org/papers/73e33d6850d24f0d6aad0d5f38937f83 Contributors: Antti Kamppi, Joni-Matti Määttä, Lauri Matilainen, Timo D. Hämäläinen, Mikko Teuho, Juho Järvinen, Esko Pekkarinen, Janne Virtanen
Data manipulation and plotting program with scripting
Altaxo is a data manipulation and plotting program written in C# for MS.NET. It is featuring worksheet views and plot views, a scripting language (currently C#) for data processing and automation, import of data from ASCII files or from images, export of graphs and embedding of graphs in other documents.
Automates the building of VANET simulations using SUMO and OMNeT++
GatcomSUMO is a multi-platform application that facilitates the building of VANET simulations using the SUMO traffic simulator and the OMNeT++ network simulator. The tasks related to the generation of abstract or synthetic scenarios, the download and conversion of network scenarios based on real maps (e.g. from OpenStreetMap), the route creation process, and the vehicles mobility modelling are integrated in a user-friendly graphical interface. This tool performs the necessary actions by invoking the set of utilities included in SUMO, saving the user from typing complex command-line orders. GatcomSUMO visualizes the network and routes easily, and they are created in such a way to meet the requirements of the involved simulators, in particular OMNeT++, in order to avoid misunderstandings and runtime errors. The application allows the conversion of the spatial coordinates used by SUMO into those used by OMNeT++, which is essential to place fixed elements like RSUs.
Speech models for Julius decoder for English and other languages
A Japan - Polish project. This project hosts state of the art open source speech models for Julius speech decoder. Its aim is to give access a wider community of speech recognition enthusiasts to quality models, which they can use in their own projects on different OS platforms (Unix, Windows, etc...) All of the models are based on HTK modelling software and data sets available freely on the Internet.
A Java web application to support all phases of the organization of scientific conferences from the submission of papers to the production of badges for participants. Corga currently ships with Hypersonic SQL, but can also run on MS SQL Server and MySQL.
Cluster wide IPC providing datagram, connection, and bus messaging
The Transparent Inter Process Communication service can be described as a cluster wide equivalent to the Unix Domain Socket IPC, but with much more features. Go to http://tipc.sourceforge.net for more details.
Converting text to a structured representation
VecText is an application that converts raw text to a structured format suitable for various data mining software. The application is written in interpreted programming language Perl. A part of the functionality is realized by external modules (e.g., Lingua::Stem::Snowball for stemming). The graphical user interface enables user-friendly software employment without requiring specialized technical skills and knowledge of a particular programming language, names of libraries and their functions, etc. All preprocessing actions are specified using common graphical elements organized into logically related blocks. The graphical user interface is implemented in Perl/Tk. In the command-line interface mode, all options need to be specified using the command line parameters. This way of non-interactive communication enables incorporating the application into a more complicated data mining process integrating several software packages or performing multiple conversions in a batch.
Effectopedia is open knowledge aggregation and collaboration tool that provides a means of describing adverse outcome pathways in encyclopedic manner.
2-photon scanning software
Iris is a LabVIEW package, developed at the Keller Lab (Basel FMI), for running 2-photon microscopes. It is supplied with auxiliary software for recording additional experimental parameters, such as behavioral states. Iris is freely available. You may modify it as you wish and use it as you wish, so long as you comply with the licence terms (see below). However, please note that we are **unable to offer any guarantee of support**. There are two exceptions to this. 1) If you find a bug (please start a ticket and report it). 2) If your support request intersects with our need to document the software. Iris is currently largely undocumented, but we will be adding documentation over time. You may file a help request in the Discussion section. If we can answer your question via expanding the documentation, then we will do so by expanding the wiki. Questions that are tangential to our development and documentation goals will likely go unanswered by the development team.
G3D is a commercial-grade C++ 3D engine. It is used in commercial games, research papers, military simulators, and university courses. G3D supports real-time rendering, off-line rendering like ray tracing, and general purpose computation on GPUs. As of January 16, 2018, SourceForge is again the home of the active repository for G3D.
Scanning Probe Microscopy Controller and Data Visualization Software
GXSM -- Gnome X Scanning Microscopy: A multi-channel image and vector-probe data acquisition and visualization system designed for SPM techniques (STM,AFM..), but also SPA-LEED/LEED/LEEM data analysis. A plug-in interface allows any user add-on data-processing and special hardware and instrument support. Latest: NC-AFM simulation support via math-plugin. Based on several hardware options it supports a commercially available DSP hardware and provided also Open Source Code for all the low level signal processing tasks and instrument controls in a most flexible and adaptable manner. All latest software is available via CVS only or Live Demo/Install CD: http://www.ventiotec.de/linux/GXSM-Linux.iso
Time-dependent simulation of open and closed quantum systems
WavePacket is a program package for numerical simulation of quantum-mechanical wavepacket dynamics for distinguishable particles. It can be used to solve one or more (i.e. coupled channels) time-independent or time-dependent (linear) Schrödinger and Liouville-von Neumann-equations. Optionally accounting for the interaction with external electric fields within the semiclassical dipole approximation, WavePacket can simulate modern experiments using ultrashort light pulses in photo-induced physics or chemistry. WavePacket is especially suitable for teaching of quantum mechanics as well as for research projects in physics, chemistry, and scientific computing. The present C++ version is an object-oriented rewrite of the existing Matlab version aiming to be more flexible. In particular, the goals are easy handling of open and closed systems and support for unusual setups.
A linguistic annotation store
LABB-CAT is a browser-based linguistics research tool that stores recordings and regular-expression searchable text transcripts of interviews. The search results, entire transcripts, and media, can be viewed or exported in a variety of format
A smart search engine for medical documents
TIES (Text Information Extraction System) is a clinical text search engine that uses Natural Language Processing techniques to extract medical concepts from free text clinical reports. It provides secure de-identified access to this information and has in built collaboration tools and honest broker functionality. It is licensed for academic use under the BSD license. For commercial use please contact Nexi at http://nexihub.com
**CODE MOVED TO GITHUB: https://github.com/bitextor ** Bitextor is an application created to generate translation memories using multilingual websites as a corpus source. It downloads an entire website and applies a set of heuristics (based mainly on HTML tag structure and text block length) to find bitexts.
PEBL (Psychology Experiment Building Language) is a system designed for creating psychology and neuroscience experiments and tests. It is cross-platform, with the intention to run the same experiment, unchanged, on Linux, Windows, and Macintosh PCs.
AVR simulator IDE
Electronic circuit simulator. Simple environment to run and debug firmware for AVR 8-bit microprocessors. Able to run arduino firmware. Internally this program uses the open source Simavr AVR Processor Simulator (https://github.com/buserror/simavr) and wraps all its functions in a GUI shell. Setups for firmware debugging scenarios can be created dynamically. Able to run 16MHz MCU with decent set of external parts in real time. In particular this can be used for development of CNC firmware in conjuction with its CAM frontend without access to the real hardware. For Linux and Windows systems. Please visit wiki pages (https://sourceforge.net/p/simutron/wiki/Home/) for instructions
A raytracer for forbidden optics
TIM is a raytracer that was originally developed to simulate optical components called METATOYs, but it has since then developed into something much more general. Amongst other things, TIM can also calculate random-dot stereograms and anaglyphs and visualise ray trajectories.
The Elvira project is a suite of tools to perform high-throughput genomic assemblies of repetitive, structured samples such as viruses or targeted regions of larger genomes.
The M.O.R.T.A.L. programming language
M.O.R.T.A.L. is a new general-purpose programming language now under development. It is meant to take the best features of multiple paradigms and combine them all into a single, easy-to-use language, suitable for professionals and hobbyists alike. (The basic OOP paradigm, with metaprogramming features, will be implemented first.) Its primary goal is to allow very heavy computations to be performed efficiently and easily, even by scientists from other fields than computer science. For more information about the language, see the Wiki.
BIOTACT Whisker Tracking Tool
The BWTT is an artefact of the EU Framework 7 Project BIOTACT 215910. It is an extensible software framework that runs under Matlab (Mathworks, TM) providing for the computation of whisker tracking algorithms for small mammal observation. Other tracking algorithms (e.g. snout tracking) can also be included. The software is released with a number of algorithms included, allowing rapid whisker tracking with no other software required (other than Matlab).
Scientific Image and Signal Analysis in Java
IQM is an image processing application written in Java. It is mainly constructed around the Java JAI library and furthermore it incorporates the functionality of the popular ImageJ image processing software. Single images, image sequences or an image stack can be processed in an interchangeable manner. Image processing settings can be easily adapted to a set of images by using an image manager. The final processing of a stack of images can be done without any additional programming steps. The image manager is a central part of IQM’s architecture and allows a rapid comparison between different image processing settings. Parallel processing of image sequences is supported, too. It is possible to load and process large image stacks in a virtual mode without loading all images into memory. Citation: P. Kainz, M. Mayrhofer-Reinhartshuber, and H. Ahammer. IQM: An extensible and portable open source application for image and signal analysis in java. PLoS ONE, 10(1):e0116329, Jan. 2015.
TFEL/MFront introduces DSLs based on C++ to handle material knowledge
The TFEL library is a collaborative effort of the French Atomic Commission and Électricité de France. TFEL mostly includes the MFront code generator. MFront is based on C++ and provides several domain specific languages which were designed to simplify the implementations of new material properties, mechanical behaviours and simple material models. A particular focus was made on mechanical behaviours which are by essence more complex and may have significant impact on the numerical performances of mechanical simulations. Various performance benchmarks show that the code generated using MFront is in most cases on par or better than other implementations, generally written in Fortran. For mechanical behaviours, MFront introduces interfaces for various finite element or FTT solvers (Cast3M, Code-Aster, ZeBuLoN, Abaqus, Europlexus, AMITEX_FFT, etc..). The authors hope that it will prove usefull for researchers and engineers, in particular in the field of solid mechanics.