Search Results for "java" - Page 34
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Showing 4378 open source projects for "java"
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JPOP is a pure java parallel optimization package based on the Optimization Java Package. It supports analytical gradients and Hessians for non-linear optimization. JPOP is based on uncmin in Fortran but employs java arrays and object oriented code.
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Drug Extraction
Drug name extraction
Drug name recognition and normalisation/grounding to DrugBank ids and standard names. Package provides 2 taggers: 1. DrugTagger - CRF-based with DrugBank presence feature (see feature set for details). 2. DrugnameGazetteer - gazetteer/dictionary-based. Dictionary created from DrugBank.ca database. Both taggers include grounding/normalisation to DrugBank ids and standard names. Feature set: Word, Word-1, Word+1, Word-1_Word, Word_Word+1, DrugBankPresence, POS DrugBankPresence... -
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Open Information Integration Tool Suite (Open II) is used by analysts and programmers to accelerate data integration and harmonization across organizations. OpenII has a neutral schema repository for browsing and comparing all sorts of data models. OpenII is built as a Rich Client Platform Application on top of Eclipse 3.x. Developers need to download Eclipse, install the RCP support, the Fatjar plugin and the Delta Pack in one of the 3.x flavors. Release Notes Release Date: Jan...
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CONMAP
Geobody connectivity analysis tool in geosciences. New version: 2.0
...It accepts input and outpts results in GEO-EAS (GSLIB) format for easy interoperability with most geoscience softwares. To get help in usage, simply run the program without arguments. CONMAP is a Java 1.7 program. Open a command prompt, go to the directory where you download CONMAP.jar and enter the command "java -jar CONMAP.jar <arguments>" (without quotation marks) to run the program. Geobody detection itself runs pretty fast, with almost all execution time spent in file loading, parsing and saving. New features in version 2.0: geobody walk, vertical transitions count and mean thickness. ... -
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Taxy is a tool for browsing and quering data organized as a taxonomy. Through the use of plugins it allows to connect to different data sources, such as the NCBI species taxonomy or the catalogue of biomedical services of the EU project ACGT.
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SoftSmithy is a platform for open source Java developers. The core is an extended Java utility library. In the future there may be open source software build on this library.
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SBSI (Systems Biology Software Infrastructure) is a suite of tools for systems biology, such as parallelized numerical algorithms, and a Java, Eclipse RCP based client for visualizing results, running simulations, and integrating SBML based plugins.
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UNSW Metadata Stores (ResData)
An institutional research metadata management repository.
ResData is an institutional metadata repository to facilitate effective management, discovery and sharing of institutional research data collections. It integrates with institutional enterprise systems, such as HR and Grant management systems to facilitate re-use of existing information, such as People and Project records. ResData has been developed by the Library Repository Services, University of New South Wales. The work was supported by the Australian National Data Service (ANDS)... -
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Gene Studio is a free tool for modelling of DNA manipulation. It will allow to work with vectors, to design primers, to clone molecules and provide user friendly intewrface.
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Gemini 3 and 200+ AI Models on One PlatformBuild, govern, and optimize agents and models with Gemini Enterprise Agent Platform.
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S1TBX
Sentinels Application Platform (SNAP)
ESA Sentinel Toolbox for Earth Observation -
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DiSir
In-silico digestion of proteins.
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PepSir
PepSir checks and filters for peptide proteotypicity.
PepSir checks and filters for peptide proteotypicity. -
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MathOCR
A printed document recognition system that can deal with formula
MathOCR try to recognize printed scientific document including mathematical formula , result is available in LaTeX and HTML. -
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Auto Primer3
Automatically design primers to genes/coordinates using primer3.
PLEASE NOTE: THIS PROJECT PAGE WILL NO LONGER BE UPDATED - PLEASE USE THE GITHUB PAGE (https://github.com/gantzgraf/autoprimer3) TO FIND THE LATEST RELEASE (https://github.com/gantzgraf/autoprimer3/releases/latest). AutoPrimer3 retrieves gene information, DNA sequences and SNP information from the UCSC genome browser and uses primer3 to automatically design primers to genes or genomic coordinate targets. Primers may be designed using information from any of the UCSC hosted genomes... -
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NexusDataLink
Connect, monitor and control your (embedded) systems remotely. m2m/IoT
Connect, monitor and control your systems or embedded devices remotely (m2m/IoT) - for example your Raspberry Pi. The communication interface is defined in XML automatically providing a REST interface. NexusDataLink integrates smoothly in existing software or firmware and significantly reduces connection- or communication-related source code. -
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p-TAREF
Plant miRNA target prediction tool
Developed by Dr Ravi Shankar (Corresponding author) and Ashwani Jha @ SCBB, CSIR-IHBT. p-TAREF stands for plant TARget REFiner. It identifies plant microRNA targets on the basis of multiple feature information. Read more http://www.biomedcentral.com/1471-2164/12/636 Query, comment etc please mail any one of us @ ashwanijha.bioinfo@gmail.com or ravish9@gmail.com -
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A mapping application written in Java that displays Ordnance Survey maps downloaded from OS's getamap website or maps from the OpenStreetMap project. It is possible to add new map sources or extra functionality through plugins.
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GESPA
Accurately predicts disease association of single nucleotide mutations
...A host of annotations are provided: orthologous and paralogous multiple sequence alignments, UCSC annotations, reports detailing conservation of a nsSNP in alignments, and links to external nsSNP and gene information such as relevant publications. GESPA is connected to a constantly updating SQL server allowing for fast data retrieval. NOTE: REQUIRES Java 1.7.0+. Port 1433 cannot be blocked by firewall, network, or antivirus program. Please cite: http://tinyurl.com/oj7p84a -
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The JINSECT toolkit is a Java-based toolkit and library that supports and demonstrates the use of n-gram graphs within Natural Language Processing applications, ranging from summarization and summary evaluation to text classification and indexing.
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Beam Strength Predictor
Predicts Moment Capacity of Beams
Requires Java Runtime Environment (JRE). You can download it at: http://www.oracle.com/technetwork/java/javase/downloads/index.html -
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CPS Wildfire Management Tool
A wildfire decision support system and visualization tool from Emxsys.
...WMT incorporates a 3D terrain viewer, the tenets of the Campbell Prediction System (CPS) and the Rothermel fire spread equations to depict fire behavior. WMT is used to adjust tactics & strategies to ensure the safety of firefighters and the effective use of firefighting resources. Requires Java 8 (included) - http://www.java.com/download -
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Exreco
EXperimental REplicator COllider
The project is moved to GitHub : https://github.com/bekisz/exreco/ Exreco is a agent based platform for the simulation and study of the Darwinian evolutionary process. It aims to support the exploration of genetically rooted phenomena like - aging (programmed cell death) - sexual and asexual reproduction - altruism of individuals - spread of diseases The typical way of using Exreco starts by defining the behavior of your replicators ( agents that can reproduce and evolve over... -
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OntoMetriCalc
A Java API for measuring OWL ontologies
OntoMetriCalc (Ontology Metrics Calculator) is a Java API for measuring OWL ontologies based on Jena.
