Search Results for "java open source projects"
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Showing 62 open source projects for "java open source projects"
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Respond 100x faster, more accurately, and improve your documentationSlash response times for questionnaires, audits, and RFPs by up to 90%. OptiValue.ai automates the heavy lifting, freeing your team to focus on strategic priorities with intuitive tools for seamless review and validation.
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gVirtualXRay
Virtual X-Ray Imaging Library on GPU
gVirtualXRay is a C++ library to simulate X-ray imaging. It is based on the Beer-Lambert law to compute the absorption of light (i.e. photons) by 3D objects (here polygon meshes). It is implemented on the graphics processing unit (GPU) using the OpenGL Shading Language (GLSL). SimpleGVXR is a smaller library build on the top of gVirtualXRay. It provides wrappers to Python, R, Ruby, Tcl, C#, Java, and GNU Octave. -
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CyberUnits
Class library for computational cybernetics
CyberUnits is a cross-platform class library for rapid development of high-performance computer simulations in life sciences. It supports modelling for biomedical cybernetics and systems biology with Object Pascal. -
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mzMatch is a Java collection of small commandline tools specific for metabolomics MS data analysis. The tools are built on top of the PeakML core library, providing mass spectrometry specific functionality and access to the PeakML file format.
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SPiCEv2.1
Splicing Prediction in Consensus Element
SPiCE is no longer maintained. To access the tool's predictions, please use SPiP, accessible at : https://sourceforge.net/projects/splicing-prediction-pipeline/ or https://github.com/raphaelleman/SPiP If you have questions, please contact me to: r.leman@baclesse.unicancer.fr or raphael.leman@orange.fr v2.1.5 (05/2019) + corr (01/2020): Fix bug for linux version v2.1.4 (03/2019): Proxy management (only for Windows version) v2.1.3 (07/2018): correction bug for first 3' ss import... -
FusionAuth: Authentication and User Management SoftwareFusionAuth adds login, registration, SSO, MFA, and a bazillion other features to your app in days - not months.
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TXM
Unicode XML TEI text analysis platform
TXM is a free and open-source cross-platform Unicode & XML based text analysis environment and graphical client, supporting Windows, Linux and Mac OS X. It can also be used online as a J2EE standard compliant web portal (GWT based) with access control built in. DOWNLOAD LATEST VERSION OF TXM : http://textometrie.ens-lyon.fr/spip.php?rubrique61&lang=en TXM offers a comprehensive range of analysis tools (concordances, collocate search, frequency lists, etc.) based on the powerfull CQP... -
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BD-Func
Bidirectional Functional Enrichment of Gene Expression Data
BD-Func is an algorithm to predict activation or inhibition of pathways based upon gene expression patterns. If you use BD-Func, please cite: Warden C, Kanaya N, Chen S, and Yuan Y-C. (2013) BD-Func: A Streamlined Algorithm for Predicting Activation and Inhibition of Pathways. peerJ, 1:e159 -
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dataMAPPs
R based pipeline for MHC-associated peptide proteomics (MAPPs) data
dataMAPPs allows routine and efficient processing of data from immunogenicity studies applying the MAPPs peptidomics technology to detect potential MHCI- or MHC-II epitopes as presented by dendritic cells (DC). It features quality control of the raw data, across-sample/across-donor normalization and visualization of results in a heatmap style (heatMAPPs). dataMAPPs' core is a generic R library that can be tailored to specific projects via dedicated control scripts which also allow... -
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Splicing Prediction Pipeline
Splicing Prediction Pipeline or SPiP
SPiP is a tool to predict the splice alteration of variant by integrate several prediction tool in a global pipeline. You can also download SPiP in zip format: https://sourceforge.net/projects/splicing-prediction-pipeline/files/SPiP_alone_v2_1.zip For Linux (GitHub): https://github.com/LBGC-CFB/SPiP If you have questions, please contact me to: r.leman@baclesse.unicancer.fr or raphael.leman@orange.fr v2.1 corrected (07/2021) : correction of score calculation v2.1... -
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COHCAP
City of Hope CpG Island Analysis Pipeline
COHCAP (City of Hope CpG Island Analysis Pipeline, pronounced "co-cap") is an algorithm to analyze single-nucleotide resolution methylation data (Illumina 450k methylation array, targeted BS-Seq, etc.). Please note: 1) The SourceForge version of COHCAP is no longer being updated. Please see the GitHub version: https://github.com/cwarden45/COHCAP This was the source repository for the Bioconductor version, with some changes after the decision to only provide the code through... -
Workspace management made easy, fast and affordable.The way we work has changed and Clearooms puts you in complete control of your hybrid workspace. Both meeting rooms and hot desk booking can be easily managed to ensure flexible and safe working, however big or small your organisation.
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We are developing data standards and software tools that implement these standards to develop a systemic approach to modeling, capturing, analyzing and disseminating flow cytometry data.
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Mass-Up
MALDI-TOF data analysis tool
Mass-Up is an Open-Source mass spectrometry utility for proteomics designed to support the preprocessing and analysis of MALDI-TOF mass spectrometry data. Mass-Up includes several tools and operations to load, preprocess and analyze MALDI-TOF data. -
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SimpleITK: a simplified layer build on top of the Insight Toolkit (ITK), intended to facilitate its use in rapid prototyping, education and interpreted languages.
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Virtual Laboratory Environment
A multi-modeling and simulation environment to study complex systems
VLE is a multi-modeling and simulation environment to study complex dynamic systems. VLE is based on the discrete event specification DEVS. and it implements the DSDE formalism (A merge of Dynamic Structure DEVS, DSDEVS, with Parallel DEVS, PDEVS). VLE provides a complete set of C++ libraries, called VFL (VLE Foundation Libraries), to develop DEVS models, to gets results of simulations, to launch simulation on cluster. The models can be developed with the DEVS formalism or with the classical... -
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This application allow user to predict dissolution profile of solid dispersion systems based on algorithms like symbolic regression, deep neural networks, random forests or generalized boosted models. Those techniques can be combined to create expert system. Application was created as a part of project K/DSC/004290 subsidy for young researchers from Polish Ministry of Higher Education.
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BUGS-R provides R / S-PLUS packages (http://www.r-project.org) for interface to WinBUGS and OpenBUGS programs. The project is no longer hosted in sourceforge, but on https://r-forge.r-project.org/projects/bugs-r
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Maui
Maui is the Maltcms User Interface
Maui is the Maltcms User Interface, a rich client application for Chromatography-Mass Spectrometry and related research areas. -
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MoCObench
Benchmark instances for multiobjective combinatorial optimization
Benchmark instances for multiobjective combinatorial optimization -
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Cygwin Ports
Repository of desktops and programs for the Cygwin platform
A large repository of open-source programs built for Cygwin, including X11 desktops, language interpreters, multimedia frameworks, cross-compiler toolchains, and much more. Also hosted here is the cygport tool for building Cygwin packages. cygport releases and the Ports Git repositories are hosted here; Ports packages are available from the website. -
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SWire4R
An R package enabling R to interact with Stata for data exchange
Swire4R is an R package for exchanging data between R and Stata. SWire4R uses SWire for connecting R to Stata. SWire is a plugin for Stata >=13 which acts like a server: client applications can query SWire for interacting with Stata. SWire4R acts like a client application for Swire, providing the user with various basic functions for retrieving data from Stata and exporting data to Stata. SWire4R must be compiled by R. For more information about SWire, visit https://sourceforge.net/projects/swire/ -
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Ship Lock Scheduling
Scheduling lockages at ship locks with several parallel lock chambers
This Java software includes algorithms of combinatorical optimization for the NP-hard offline ship lock scheduling problem. Solutions and performed computations can be displayed graphically. Besides, there is a framework for generating test instances and running these in parallel, as well as R/JGR code for statistical evaluation. Some tools for estimating the quality of calculated solutions will be further improved. Initially the software was developed within a project of TU Berlin regarding... -
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Waterloo
Java-based scientific graphics
Java-based scientific graphics with support for Java, Groovy, MATLAB, Python, the R statistical environment, Scala and SciLab. -
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CanReg5 (moved to Github)
Canreg5 is a software package for population based cancer registries
Cancer registries need a tool to input, store, check and analyse their data. If these data are also coded and verified in a standard way, it facilitates the production of comparable analyses across registry populations. The main goal of the CanReg5 project is to provide a flexible and easy to use tool to accomplish these objectives. CanReg5 is a multi user, multi platform, open source tool to input, store, check and analyse cancer registry data. It has modules to do: data entry,... -
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IAP.G2P
IAP - the Integrated Analysis Pipeline
The Integrated Analysis Platform (IAP) has been designed and developed to support the analysis of large-scale image data sets of different camera systems. It aims in bridging different data domains and in integrating different approaches to data analysis and post-processing. -
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The Dataverse Network is a Java EE5 app that enables researchers to share data on-line. It provides data citation standards, facilitates preservation, distribution and replication of data, and includes statistical analysis. More at: http://thedata.org
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The Protein Similarity Network
Human protein similarity network used to predict drug safety.
This is the protein similarity network - PSIN. Here, the nodes are human proteins and they are linked only if they share considerable sequence similarity. We found that this network is particularly useful to distinguish approved from problematic drug-targets. Here you also find the complete set of programs and datasets we used for this purpose. Free to help further test and develop this project. Your help and expertise are much appreciated ! If you have any questions, please do...
