Search Results for "matrix structural analysis"
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Showing 26 open source projects for "matrix structural analysis"
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Tencent Cloud Code Analysis
Static code analysis
Tencent Cloud Code Analysis (TCA for short, used internally by the R&D code CodeDog ) is a cloud-native, distributed, high-performance comprehensive code analysis and tracking platform that integrates many analysis tools, including server, web and client The three components have integrated a number of self-developed tools, and also support the dynamic integration of analysis tools of various programming languages in the industry. Obtain the Tencent Cloud code analysis platform by... -
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Torch Pruning
DepGraph: Towards Any Structural Pruning
Torch-Pruning is an open-source toolkit designed to optimize deep neural networks by performing structural pruning directly within PyTorch models. The library focuses on reducing the size and computational cost of neural networks by removing redundant parameters and channels while maintaining model performance. It introduces a graph-based algorithm called DepGraph that automatically identifies dependencies between layers, allowing parameters to be pruned safely across complex architectures. ... -
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LLM-Pruner
On the Structural Pruning of Large Language Models
...LLM-Pruner addresses this issue by identifying and removing non-essential components within transformer architectures, such as redundant attention heads or feed-forward structures. The framework relies on gradient-based analysis to determine which parameters contribute least to model performance, enabling targeted structural pruning rather than simple weight removal. After pruning, the framework applies lightweight fine-tuning methods such as LoRA to recover performance using relatively small datasets and short training times. -
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Skill Scanner
Security Scanner for Agent Skills
This repository is a public security-focused scanning tool intended to analyze and assess AI agent skills for potential issues, quality concerns, and vulnerabilities. It acts as a scanner that inspects Agent Skills packages to flag structural problems, inconsistencies, or security flaws before they are deployed or integrated into agent workflows. Because agent skills can contain executable instructions and logic, scanning them for risky patterns is essential to prevent inadvertent... -
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FeAture Explorer (FAE), a radiomics (or medical analysis) tool that helps radiologists extract features, preprocess feature matrix, develop machine learning models (Binary Classification & Survival Analysis) with one-click, and evaluate models qualitatively and quantitatively. This project was inspired on the Radiomics, and provides a GUI with convenient process. FAE was initially developed by East China Normal University and Siemens Healthineers Ltd.
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CAMPARI
Software for molecular simulations and trajectory analysis
We are proud to introduce version 5 of CAMPARI. We have added a number of new features, most notably a Python interface for interpreting user-supplied code (with the help of ForPy), a novel trajectory storage standard (with the help of libpqxx/PostgreSQL), and a module for performing transition path theory. Naturally, CAMPARI continues to provide the reference implementation of the ABSINTH force field paradigm and implicit solvation model. CAMPARI is a joint package for performing and... -
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FEATool Multiphysics - FEA & CFD Toolbox
FEATool Multiphysics is an easy-to-use FEA and CFD Simulation Toolbox
FEATool Multiphysics (https://www.featool.com) is a fully integrated toolbox for computer aided engineering CAE, finite element analysis & fluid dynamics simulations. With a very easy-to-use GUI, anyone is now able to quickly set up and perform large scale dynamical and complex engineering physics simulations, with coupled fluid flow, heat transfer, structural mechanics, chemical transport, and electromagnetics effects, without having to learn complex programming. ... -
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MLPACK is a C++ machine learning library with emphasis on scalability, speed, and ease-of-use. Its aim is to make machine learning possible for novice users by means of a simple, consistent API, while simultaneously exploiting C++ language features to provide maximum performance and flexibility for expert users. * More info + downloads: https://mlpack.org * Git repo: https://github.com/mlpack/mlpack
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Pysces
PySCeS is the Python Simulator of Cellular Systems
PySCeS is the Python Simulator of Cellular Systems. For a network of coupled reactions it does a stoichiometric matrix analysis, calculates the time course and steady state, and does a complete control analysis. -
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DockStream
A Docking Wrapper to Enhance De Novo Molecular Design
DockStream is a docking wrapper providing access to a collection of ligand embedders and docking backends. Docking execution and post hoc analysis can be automated via the benchmarking and analysis workflow. The flexilibity to specifiy a large variety of docking configurations allows tailored protocols for diverse end applications. DockStream can also parallelize docking across CPU cores, increasing throughput. DockStream is integrated with the de novo design platform, REINVENT, allowing one to incorporate docking into the generative process, thus providing the agent with 3D structural information. -
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Frontend Regression Validator (FRED)
Visual regression tool used to compare baseline and updated instances
...FRED is responsible for automatic visual regression testing, with the purpose of ensuring that functionality is not broken by comparing a current(baseline) and an updated version of a website. The visual analysis computes the Normalized Mean Squared error and the Structural Similarity Index on the screenshots of the baseline and updated sites, while the visual AI looks at layout and content changes independently by applying image segmentation Machine Learning techniques to recognize high-level text and image visual structures. This reduces the impact of dynamic content yielding false positives. ... -
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2D Structural Analysis
Determine the bending moments, shear forces, axial forces and displace
2D Structural Analysis in Python by Ritchie Vink A collection examples of 2D Finite Element Analysis (FEA) made with Jupyter Notebook Lab - https://jupyter.org/ To install Jupyter - https://jupyter.org/install ===== App is available on Play Store -> https://play.google.com/store/apps/details?id=com.ulm.struct If you want to download a python editor for your android smartphone follow this link -> https://play.google.com/store/apps/details? -
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ParamIT
a Toolset for Molecular Mechanical Force Field Parameterization
...The developed toolkit helps the researchers in following ways: 1) automating the creation of multiple input files for quantum and molecular mechanics programs, 2) automating the output analysis and 3) substitute the use of full MM programs with a faster specialized one. The developed tools include: 1) generator of molecule-water complexes with graphical user interface (GUI), 2) semi-automatic frequency analysis using symbolic potential energy distribution matrix and comparison of optimized internal coordinates, 3) GUI for charge fitting with three modes: manual, Monte-Carlo sampling or brute force, and 4) GUI for dihedral terms fitting. ... -
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Scikit-plot
An intuitive library to add plotting functionality to scikit-learn
Single line functions for detailed visualizations. Scikit-plot is the result of an unartistic data scientist's dreadful realization that visualization is one of the most crucial components in the data science process, not just a mere afterthought. Gaining insights is simply a lot easier when you're looking at a colored heatmap of a confusion matrix complete with class labels rather than a single-line dump of numbers enclosed in brackets. Besides, if you ever need to present your results to... -
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Biskit is a python library for structural bioinformatics research. It simplifies the analysis of macromolecular structures, protein complexes, and molecular dynamics trajectories and offers a platform for the rapid integration of external programs. PLEASE NOTE: The Biskit source code as well as any later releases are now hosted on https://github.com/graik/biskit The sourceforge repo is only kept here for reference.
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SciEnPlot
Data Plotting and Analysis for Science and Engineering
- Save and open a Work/Project (spf) file - Single fitting/ Batch fitting (user defined custom func) - Matrix to XYZ in Tool menu - Symbol plot: makers, curve, landscape, bar, etc. - Implemented a 3d surface plot (GLSurface) based on OpenGL (ScienPlot v1.3.2 and above) - ColorMap surface, trisurface, Pie, Polar plots, and 3D height field, 3dBar, scatter plots (under developing), and more - Column by column plotting/calculation - LaTex commands enclosed by $ symbols can be used for... -
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xPyder PyMOL Plugin
Analyze and visualize coupled residues and their networks in proteins
...PSN), and more, to produce highly customizable publication-quality images. xPyder identifies networks (using concepts from graph theory, such as hubs and shortest path searching), compares matrices and focuses the analysis on relevant information by filtering the data using a modular, user-expandable plugin system that takes advantage of structural and dynamical information, contributing to bridge the gap between dynamical and mechanical properties at the molecular level. -
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SPADE
A toolkit for developing and deploying protein structure algorithms.
The Structural Proteomics Application Development Environment is a Python tool kit for developing and deploying bioinformatics applications. Handles graphics, analysis, and modeling of protein sequence and structure. Source and Win installers available. SPADE source code can be cloned from http://www.github.com/deaconjs/SPADE. -
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ParaSim
Parallelized calculation of molecular similarities
Diversity assessments and comparisons of large compound databases require calculating similarities of millions of compounds in an affordable time. ParaSim addresses this challenge by parallelizing the calculations according to the number of computing cores available on a single machine. It is optimized for the throughput of very large numbers of query structures against very large numbers of reference structures. As as special feature, ParaSim allows to store and and to access frequently... -
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pyTruss
Simple 3D Structural Analysis
Basic 3D structural analysis in python. GUI allows building simple 3D shapes, applying static loads and monitoring dynamic load on beams. Based on OpenGL and ODE. -
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The neuroimaging in python (NIPY) project is an environment for the analysis of structural and functional neuroimaging data. It currently has a full system for general linear modeling of functional magnetic resonance imaging (fMRI).
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PyPedal is a Python module that provides tools for the manipulation of pedigrees, simple visualization of pedigrees, and the calculation of measures of genetic diversity from pedigrees.
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MBDyn_sim_suite is a collection of free pre&post-processing tools and simulation models for the open-source multi-body analysis software MBDyn forming a general purpose simulation environment for structural dynamics with an emphasis on wind turbines.
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PySDB is simple to use field data manager for structural geologists written in Python. Data are traditionally organized by sites and rock units, classified by structural types and could be freely tagged by user-defined labels.
