Search Results for "open-shell" - Page 27
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Showing 4550 open source projects for "open-shell"
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The JTS Topology Suite is an API for modelling and manipulating 2-dimensional linear geometry. It provides numerous geometric predicates and functions. JTS conforms to the Simple Features Specification for SQL published by the Open GIS Consortium.
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came
Identification of chromatin accessibility from NOMe-seq
Chromatin accessibility plays a key role in epigenetic regulation of gene activation and silencing. Open chromatin regions allow regulatory elements such as transcription factors and polymerases to bind for gene expression while closed chromatin regions prevent the activity of transcriptional machinery. Recently, nucleosome occupancy and methylome sequencing (NOMe-seq) has been developed for simultaneously profiling of chromatin accessibility and DNA methylation on single molecules. ... -
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JUMP Database Query Plugin
DB Query Plugin for OpenJump
The JUMP DB Query Plugin is an extension for the OpenJUMP GIS platform that allows OpenJUMP users to give arbitrary database queries to retrieve and display geographic feature sets. Spatial databases currently supported are PostGIS, Oracle Spatial, MySQL, and SpatiaLite. -
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MorphoLim
MorphoLim : identifying city boundaries
MorphoLim has been moved to sourcesup (https://sourcesup.renater.fr/morpholim/). MorphoLim is dedicated to the identification of the morphological boundary of urban agglomerations. The method used avoids the need for any pre-defined maximum distance threshold between buildings. It is based on the conceptual and methodological tools of fractal geometry. Authors of the application: Cécile Tannier, Gilles Vuidel, and Pierre Frankhauser (ThéMA, Besançon, France) -
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The Tolven platform and ePHR and eCHR applications enable interoperability across electronic health records for consumers and clinicians. Using Java, EJB3, Faces, Facelets, AJAX, relational database, and LDAP for security.
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Collaborative infrastructure for Collaborative Product Development (manufacturing) within Extended and Virtual Enterprise.
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OpenSeaMap's goal is to add nautical and tourism information a sailor could be interested in to OSM (OpenStreetMap) and to present it in a pleasing way. Those include beacons, buoys and other seamark and port information.
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openModeller is a complete C++ framework for species potential distribution modelling. The project also includes a graphical user interface, a web service interface and an API for Python.
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physicsmata
API for all possible cellular automata that work same at all angles
Its strange how the "sorted pointers" normalizing makes just about any random function, as long as it connects the inputs to the outputs on some path, vibrate as some nonlinear shape of wave. This could be used as a game interface for evolvable musical instruments or fluid puzzle games. Physicsmata is similar in effect to SmoothLife but simpler and pure Java. The cellular automata API takes a function to run at each point. Its parameters are sums of screen brightness (n color dimensions are... -
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Systems Biology Simulation Core Library
Accurate and efficient Java library that simulates biological models
This project has been moved to https://github.com/draeger-lab/SBSCL. -
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MyOscar is a personal health record system. This project contains both the data storage server as well as a client / patient UI for accessing the data. Other data access clients can be / have been written, the Oscar EMR is one such client. The sourceforge myoscar-users@lists.sourceforge.net is the main mail list and form of communications for this project. The sourceforge Tickets system is the bug and feature tracker for this project. The sourceforge git repository is not the...
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owl reasoning over big biomedical data
A OWL reasoning framework for the analysis of big biomedical data
A general OWL reasoning framework for the analysis of big biomedical data and implement a MapReduce-based property chain reasoning prototype system. OWL reasoning method is ideally suitable for problems involved complex semantic associations because it is able to infer logical consequences based on a set of asserted rules or axioms. MapReduce framework isused to solve the problem of scalability. In our experiment, we focus on the discovery of associations between Traditional Chinese Medicine... -
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Nets&Nuts
Communicating Vision PLC with Java - Linux server
This is a Java application which enables the communication among Vision V350 PLC and Linux server without using OPC server. In fact there are two applications: 1- TCP_Server which timely receives data sent from PLC 2- TCP_Client which implements the Unitronics ASCII communication protocol allowing an user read and write any PLC registers of Vision V350 model. -
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Arezzo is an emulator of a Flexible Manufacturing System (FMS) usable with the "Bench4star" benchmark.
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Eviewbox is a java imaging suite, its purpose is to view and spread native DICOM medical images and allowing for 2D reconstructions. EViewbox applet will allow to see the DICOM images on every platform.
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BioUtils - Proteomics
Lightweight framework for handling biological and bioinformatical data
The BioUtils - Proteomics package is a lightweight Java framework for handling commonly used data produced and needed in the field of Mass spectrometry in general and especially in the field of Proteomics. It's stable, intuitive to use and good integrated with Java 6 SDK and later. -
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An efficient Java-based Multi-agent Platform implementing the micro-agent concept µ² offering network support and multiple agent implementation languages. Detailed instructions and documentation can be found under http://www.micro-agents.net. This project has been moved to Github.
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nmea4j
NMEA libary for java (protocol of GPS devices)
The aim of this project is to create a full utility suite for NMEA protocols (best known from GPS devices). First goal is a full implemenation of the NMEA 0183 protocol 3.0 (without proprietary extensions). The library provides parsers for NMEA sentences, gpsd-like network daemons and data generators for simulation and testing. This allows advanced sensor handling from cellphones/tablets/laptops with GPS up to vehicles/ships with NMEA sensors on board. -
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EDM Calibration Baseline Fitting
EDMFit is an adjustment tool to estimate EDM calibration parameters.
An EDM calibration baseline is used to derive specific instrument errors of the electronic distance measurement (EDM) unit of a total station. EDMFit is a simple adjustment tool to estimate the EDM calibration parameters (addition constant and/or scale parameter). The adjustment process is according to ISO 17123-4. The parameters are checked for significance, to avoid an overestimation. Based on two classical hypothesis testing, EDMFit provides a reliable outlier detection. For... -
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MARF is a general cross-platform framework with a collection of algorithms for audio (voice, speech, and sound) and natural language text analysis and recognition along with sample applications (identification, NLP, etc.) of its use, implemented in Java.
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OptFerm
A computational platform to study fermentation processes
OptFerm is a computational platform for the simulation and optimization of fermentation processes. The aim of this project is to offer a platform-independent, user-friendly, open-source and extensible environment for Bioengineering process optimization that can be used to increase productivity. This tool is focused in optimizing a feeding trajectory to be fed into a fed-batch bioreactor and to calculate the best concentration of nutrients to initiate the fermentation. Also, contains a module for the estimation of kinetic and yield parameters, allowing the use of experimental data obtained from batch or fed-batch fermentations to reach the best possible model setup. -
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Argunet
argument map editor for analyzing and visualizing complex debates
Argunet is a client-server software for computer-supported argument visualization (CSAV). Reconstructed debates are visualized as argument maps and can be shared through the Argunet Server. -
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kovacs.util (Java numerical classes)
!!! moved to jnum subproject under crush-software !!!
This project has be renamed to jnum and moved under the crush-software project. No further SVN commits here... -
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memesa-tools
A collection of tools used in the enumeration of solution spaces
This collection of tools forms the basis of a pipeline for the complete enumeration of the number of solutions present in a model that maximizes a single objective function. -
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Sequencia
Protein Primary Sequnece Analysis
The current work is focused on the Software Development of an Offline Tool for “PRIMARY-SEQUENCE ANALYSIS” with JAVA and open source resources. SEQUENCIA Tool is an offline Tool of Primary Sequence Analysis, which is quite prevalent Topic for Researchers all over the world. Sequence Name, Sequence Length, Absorbance, Net charge, Iso electric charge, Amino acid composition, Amino acid classification, Aliphatic Index, Instability Index, Average Hydropathy etc are the Primary Sequence Analysis related Attributes for which this Tool exist. ...
