Search Results for "research" - Page 68
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Showing 15060 open source projects for "research"
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123VCF
An Intuitive and Efficient Tool for VCF file filtration
123VCF has been developed to make the filtration step of VCF files efficient and more importantly easy to understand. It can be used in the most important step of whole exome/genome sequencing data analysis in the research and also clinical settings. User manual: https://dl.adbioinformatics.net/123VCF/123VCF_Manual.ver2.pdf If you use 123VCF, please cite its paper: Eidi, M., Abdolalizadeh, S., Moeini, S. et al. 123VCF: an intuitive and efficient tool for filtering VCF files. BMC Bioinformatics 25, 68 (2024). https://doi.org/10.1186/s12859-024-05661-5 _____________________________________ Authors: Milad Eidi, Samaneh Abdolalizadeh, Soheila Moeini Supervisors: Javad Zahiri, PhD - Masoud Garshasbi, PhD Department of Neuroscience, University of California San Diego, California, USA Department of Medical Genetics, Faculty of Medical Sciences, Tarbiat Modares University, Tehran, Iran -
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Robust and precise simulation of hard discs on a plane. Supports different types of motion, can simulate motion on a torus or strip with various obstacles.
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gputils is a collection of tools for Microchip PIC microcontrollers. Its goal is to be fully compatible with Microchip's tools, MPASM, MPLINK, and MPLIB.
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FXtransformer Designer is a graphical design aid for both power and RF transformers. RF Design: Broadband, Single-Tuned, Double-Tuned.
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ReplitLM
Inference code and configs for the ReplitLM model family
...These models are designed specifically for coding workflows and are trained on large datasets of source code covering many programming languages and development environments. The repository also includes documentation and tutorials for integrating the models into development tools, APIs, or research pipelines. Developers can fine-tune the models using instruction-tuning techniques to adapt them for specific programming tasks or domains. The models were trained using modern deep learning techniques and large-scale GPU infrastructure to achieve strong performance in code completion and generation tasks. -
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Free Version - Flow Cytometery FCS 2.0 and FCS 3.0 analysis compatible with BD, Coulter/Ortho, and Partec sample files. This implementation is platform independent and uses an apache-tomcat server, and runs all computers (Linux, PC, and Mac).
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LMAX Disruptor
High performance inter-thread messaging library
...Performance testing showed that using queues to pass data between stages of the system was introducing latency, so we focused on optimising this area. The Disruptor is the result of our research and testing. We found that cache misses at the CPU-level, and locks requiring kernel arbitration are both extremely costly, so we created a framework which has "mechanical sympathy" for the hardware it’s running on, and that’s lock-free. This is not a specialist solution, it’s not designed to work only for a financial application. ... -
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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... -
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ViReMa
Viral Recombination Mapper
ViReMa (Viral Recombination Mapper) detects and reports recombination or fusion events in virus genomes using deep sequencing datasets. Feb 2014 - Our paper (Open Access) is available at Nucleic Acids Research: "Discovery of functional genomic motifs in viruses with ViReMa–a Virus Recombination Mapper–for analysis of next-generation sequencing data" http://nar.oxfordjournals.org/content/42/2/e11 This is an on-going project and updates will be regularly posted. Please get in touch with any questions, problems or suggestions. -
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The DaCapo Benchmark Suite
Benchmarking tool
This benchmark suite is intend as a tool for the research community. It consists of a set of open source, real world applications with non-trivial memory loads. -
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DeepMind Research
Implementations and code to accompany DeepMind publications
This repository collects reference implementations and illustrative code accompanying a wide range of DeepMind publications, making it easier for the research community to reproduce results, inspect algorithms, and build on prior work. The top level organizes many paper-specific directories across domains such as deep reinforcement learning, self-supervised vision, generative modeling, scientific ML, and program synthesis—for example BYOL, Perceiver/Perceiver IO, Enformer for genomics, MeshGraphNets for physics, RL Unplugged, Nowcasting for weather, and more. ... -
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corlpack
Ada Library for heterogenous vectors
Corlpack consists of a library and tools aiming to simplify and accelerate programming of small, scientific, computational applications. One of the planned features is the loading and saving of a variety of research data into a single generic data structure, that is much like the named list from R, thus removing the need to learn many data access APIs. -
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SGraph
Create charts by retrieving data from Stata on-the-fly
SGraph is a web application that interacts with Stata for creating graphs. It is a demo application that demostrates how to exploit SWire for creating web applications that communicate with Stata. SGraph is an open source project and you can download the code from the project web site web site or try the app on-line here: http://sgraph-with-swire.sourceforge.net/ The source project is hosted in GitHub: https://github.com/lomagno/sgraph -
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pexm - JAGS module
JAGS module for the piecewise exponential distribution
This new module was built for users interested in a programming language similar to BUGS to fit a Bayesian model based on the piecewise exponential distribution. The module is an extension of the open-source program JAGS. The PE distribution is widely used in the fields of survival analysis and reliability. Currently, it can only be implemented in JAGS through methods to indirectly specify the likelihood based on the Poisson or Bernoulli probabilities. Our module provides a more... -
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Octave Wrapper CoolProp Library
Octave Wrapper CoolProp Library linked to win32 and win64
Octave Wrapper CoolProp Library linked to win32 and win64 -
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GSvit
Fast FDTD solver with graphics card support
Fast FDTD solver with graphics card support. Optimized for nanoscale optics - scanning near field optical microscopy, rough surface scattering and solar cells. Uses CUDA environment for graphics card operation. -
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UnityMol
Molecular viewer and prototyping framework
!!! New website is https://unity.mol3d.tech and new releases/source code are now on Github : https://github.com/LBT-CNRS/UnityMol-Releases !!!! Implementation of a visualization prototype for molecular structures and networks using the Unity3D game engine. Implementation of numerous graphical methods as spheres, particle systems, bond, etc.. as well as our recent HyperBalls methodology (see: www.hyperballs.sf.net). -
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QuantResearch
Quantitative analysis, strategies and backtests
QuantResearch is a large educational repository dedicated to quantitative finance, algorithmic trading, and financial machine learning research. The project contains numerous notebooks and research materials demonstrating quantitative analysis techniques used in financial markets. These include implementations of factor models, statistical arbitrage strategies, portfolio optimization methods, and reinforcement learning approaches to trading. The repository also explores financial modeling topics such as vector autoregression, Gaussian mixture models, and option pricing techniques. ... -
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Discriminative Concept Learning Network: Sample Source Code and Supplement The provided code and document refer to the 14th reference of the main paper. DCLN v2 is the consolidated and revised core implementation, extracted from the original experiment codebase and packaged for standalone distribution. The core code and document are available in ‘archive-base-2.1.1.zip’. Older v2.0.X, utilities, data, revision notes and rerun results are included in ‘archive-legacy-2.0.X.zip’.
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The project builds a new AI of AIBO from scratch. Currently, I have a white ERS-7 model, Rakka. Project is based on Boost, Qt, OpenCV, other 3rd party software and my own source codes.
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From Zero to Research Scientist guide
Detailed and tailored guide for undergraduate students
From-0-to-Research-Scientist-resources-guide is an open-source educational roadmap that helps learners progress from basic programming knowledge to becoming a research scientist in artificial intelligence. The repository focuses primarily on deep learning and natural language processing, providing structured guidance for individuals who want to pursue research careers in these fields. -
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JSmol
JavaScript-Based Molecular Viewer From Jmol
JSmol is the extension of the Java-based molecular visualization applet Jmol (jmol.sourceforge.net) as an HTML5 JavaScript-only web app. It can be used in conjunction with the Java applet to provide an alternative to Java when the platform does not support that (iPhone/iPad) or does not support applets (Android). Used in conjunction with the Jmol JavaScript Object (http://wiki.jmol.org/index.php/Jmol_Javascript_Object), JSmol seamlessly offers alternatives to Java on these non-Applet... -
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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...
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Discriminative Concept Learning Network: Sample Source Code and Supplement The provided code and document refer to the 14th reference of the main paper. DCLN v2 is the consolidated and revised core implementation, extracted from the original experiment codebase and packaged for standalone distribution. The core code and document are available in ‘archive-base-2.1.1.zip’. Older v2.0.X, utilities, data, revision notes and rerun results are included in ‘archive-legacy-2.0.X.zip’.
