Nonresidential California Energy Commission Performance Compliance
California Energy Commission software for nonresidential building energy code compliance analysis based on the performance path. License (modified BSD) for CEC Compliance Engine and CBECC-Com UI: https://sourceforge.net/p/cbecc-com/code/HEAD/tree/trunk/CBECC-Com13/License.txt License for embedded EnergyPlus software: https://sourceforge.net/p/cbecc-com/code/HEAD/tree/trunk/CBECC-Com13/License-EPlusUser.txt
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.
ITK is an open-source software system to support the Visible Human Project. Currently under active development, ITK employs leading-edge segmentation and registration algorithms in two, three, and more dimensions.
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.
Framework for intelligent service-based networks. Mobile compatible.
Fully integrated framework for building and deploying service-based networks (SOA / Microservices). Communication includes XML-RPC, REST and Web Services. Other features include service protection, admin scripts, metadata, query processes, autonomous, agent-based, or self-organising. Special to the system are its AI and text-processing features. In particular, there is an Autonomic Manager framework with a BPEL-style execution script. Sub-packages include text or query processing and a problem solver provides a range of algorithms. These can also be used separately, but advanced programming and configuration is required. A free All-in-One GUI allows you to manage services and function, and add your own modules. Example Apps are included and the images illustrate the functionality. The open source p2p server requires only the HTTP address and optional passwords. Small jar file sizes and mobile compatible.
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
Logic Programming and Deductive Database system (Tabled Prolog) for Unix and Windows.
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
java library for XML, HTML, or SVG generation + bioinformatics classes
The com.hfg (hairyfatguy.com) library is a collection of utility classes that make it easy to construct XML, HTML, XHTML, or SVG in an object-oriented way from within your Java application or webapp. It also contains other IO utilities and bioinformatics classes for phylogenetic trees, taxonomy, and multi-chain proteins. Requires JDK1.8.
Calculate growth rates from microplate reader output
GrowthRates uses the output from microbial growth rate experiments that are done using microtiter plate readers to caculate the best-fit growth rates, the lag times and the maximum OD.
Detection Classification and Localisation of marine mammals
The PAMGUARD project develops software to help detect, locate and classify marine mammals using Passive Acoustic Monitoring.
SAGA - System for Automated Geoscientific Analyses - is a Geographic Information System (GIS) software with immense capabilities for geodata processing and analysis. SAGA is programmed in the object oriented C++ language and supports the implementation of new functions with a very effective Application Programming Interface (API). Functions are organised as modules in framework independent Module Libraries and can be accessed via SAGA’s Graphical User Interface (GUI) or various scripting environments (shell scripts, Python, R, ...). Please provide the following reference in your work if you are using SAGA: Conrad, O., Bechtel, B., Bock, M., Dietrich, H., Fischer, E., Gerlitz, L., Wehberg, J., Wichmann, V., and Boehner, J. (2015): System for Automated Geoscientific Analyses (SAGA) v. 2.1.4. Geosci. Model Dev., 8, 1991-2007, doi:10.5194/gmd-8-1991-2015. http://www.geosci-model-dev.net/8/1991/2015/gmd-8-1991-2015.html.
Matlab-based analysis of Atom Probe Data
A collection of scripts and functions for the analysis of atom probe tomography data. Currently, this includes: standard file operations, plotting mass spectra, mass spectra analysis and peak deconvolution. If you are looking for Dan Haley's "weights" program, go here https://sourceforge.net/projects/apttools/files/extras/
Fortran library to compute positions of celestial bodies
libTheSky is a Fortran library to compute positions of celestial bodies (Moon, planets, stars) and events (conjunctions, eclipses). It forms the core of the software that produces the Dutch popular-astronomy website http://hemel.waarnemen.com
Components for IEC61375 standardised communication
TCNOpen is an open source initiative which the partner railway industries created with the aim to build in collaboration some key parts of new or upcoming railway standards, commonly known under the name TCN. TCN (Train Communication Network) is a series of international standards (IEC61375) developed by Working Group 43 of the IEC (International Electrotechnical Commission), specifying a communication system for the data communication within and between vehicles of a train. It is currently in use on many thousands of trains in the world in order to allow electronic devices to exchange information while operating aboard the same train. TCNOpen follows the Open Source scheme, as the software is jointly developed by participating companies, according to their role, so as to achieve cheaper, quicker and better quality results. Licenses: TRDP: MPLv2.0 http://www.mozilla.org/MPL/2.0/ TRDPSpy: GPL http://www.gnu.org/licenses/gpl.html
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.
Fast C++ library for linear algebra (matrix maths) and scientific computing. Easy to use functions and syntax, deliberately similar to Matlab. Uses template meta-programming techniques. Also provides efficient wrappers for LAPACK, BLAS, ATLAS, ARPACK and SuperLU libraries, including high-performance versions such as OpenBLAS and Intel MKL. Useful for machine learning, pattern recognition, signal processing, bioinformatics, statistics, finance, etc. For more details, see http://arma.sourceforge.net
Dynamics of quantum systems, controlled by external fields
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, including quantum optimal control. The graphical capabilities allow visualization 'on the fly', including Wigner transforms to phase space. A description of WavePacket can be found in our manuscript at http://dx.doi.org/10.1016/j.cpc.2016.12.007. For examples / movies, see also the Wiki pages of the WavePacket main project. First established in 2004, the present Matlab version is in a stable, mature state. Further development mainly by Burkhard Schmidt at Free University Berlin
PTP IEEE 1588 stack for Linux
This project is an implementation of the Precision Time Protocol (PTP) according to IEEE standard 1588 for Linux.
The Systems Biology Format Converter (SBFC) is a Java generic framework aiming to translate any systems biology model format into another. The SBFC Web Site providing detailed feature description and instructions for installing, using and developing new modules is: http://sbfc.sourceforge.net/ . Currently, SBFC allows the user to convert SBML models into the formats: BioPax, Matlab, Octave, XPP, DOT, and SBGN. Due to its modular design fast development and addition of new converters is highly facilitated. SBFC can be executed in two modes: 1. standalone executable downloading the package provided in this website; 2. web-service at http://www.ebi.ac.uk/biomodels/tools/converters . For general discussion about SBFC, please use the forum firstname.lastname@example.org . A mailing-list is also available for developers: email@example.com Thanks for using SBFC! The SBFC Team
EPRI Distribution System Simulator
The OpenDSS is an electric power Distribution System Simulator (DSS) for supporting distributed resource integration and grid modernization efforts. See Discussion Forum for latest news.
A fast and robust software for tracking organisms
ToxTrac is a free Windows program optimized for tracking animals. It uses an advanced tracking algorithm that is robust; very fast; and that can handle one or several animals in one or several environments. The program provides useful statistics as output. ToxTrac can be used for fish, insects, rodents, etc. If used, please cite: Rodriguez, A., Zhang, H., Klaminder, J., Brodin, T., Andersson, P. L. and Andersson, M. (2017). ToxTrac: a fast and robust software for tracking organisms. Methods in Ecology and Evolution. 2017(00):1-5. Rodriguez, A., Zhang, H., Klaminder, J., Brodin, T., and Andersson, M. (2017). ToxId: an algorithm to track the identity of multiple animals. Scientific Reports. 7(1):14774. Contact Magnus Andersson, Department of Physics, Umeå University firstname.lastname@example.org Support Alvaro Rodriguez, Main Developer email@example.com Supported by Kempestiftelserna
develop, simulate and run magnetic resonance sequences
ODIN is a free software framework for rapid prototyping of magnetic resonance imaging (MRI) sequences. The sequences can be tested, simulated and executed on scanner hardware from different manufacturers.
GATE (General Architecture for Text Engineering) is an architecture, framework and development environment for developing, evaluating and embedding Human Language Technology. See http://gate.ac.uk for full details.
Fudaa is an Object Oriented and Distributed Integration Platform For Scientific Codes. This platform,written in Java/Corba, gives all the tools needed to build a communication interface and a graphic user interface for scientific codes.