Open Source Scientific/Engineering Software - Page 45
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Scientific/Engineering Software
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MongoDB Atlas runs apps anywhereMongoDB Atlas gives you the freedom to build and run modern applications anywhere—across AWS, Azure, and Google Cloud. With global availability in over 115 regions, Atlas lets you deploy close to your users, meet compliance needs, and scale with confidence across any geography.
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Host LLMs in Production With On-Demand GPUsDeploy your model, get an endpoint, pay only for compute time. No GPU provisioning or infrastructure management required.
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RELEASE NOTE: Get raxmlGUI 2.0 at the NEW PROJECT LOCATION: https://antonellilab.github.io/raxmlGUI/ raxmlGUI is a graphical user interface to RAxML, one of the most popular and widely used software for phylogenetic inference using maximum likelihood. A userfriendly graphical front-end for phylogenetic analyses using RAxML (Stamatakis, 2006). Please cite: Silvestro, Michalak (2012) - raxmlGUI: a graphical front-end for RAxML. Organisms Diversity and Evolution 12, 335-337. DOI: 10.1007/s13127-011-0056-0
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The Ground Station Software Suite projects aims at providing free, useful software tools for ham radio operators. Currently, these projects used to host the Grig communication radio control and Gpredict. The source repositories have been moved over to GitHub.
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Online Version: An online version of this simulator is being developed at http://cloudcnc.in. The online version doesn't require any download - simply write/edit your code and simulate it side by side! CNC Simulator is a Computer Numerical Control (CNC) lathe machine simulator. It simulates the path that the tool of a CNC lathe would take for a given program. The simulation is two-dimensional. with provision for final view in 3D using OpenGL.
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Train ML Models With SQL You Already KnowBuild and deploy ML models using familiar SQL. Automate data prep with built-in Gemini. Query 1 TB and store 10 GB free monthly.
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Cantera is a suite of object-oriented software tools for problems involving chemical kinetics, thermodynamics, and/or transport processes. It can be used from MATLAB, Python, C++, or Fortran.
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The project aims to identify a simple and low cost eddy current probe that can be interfaced directly to ordinary linux systems and develop software to record data and identify hidden corrosion on aircraft during their mandated annual inspections.
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The Dutchroll project provides Open Source applications for Matlab and Simulink, with the emphasis on aerospace engineering. The main application is the Flight Dynamics and Control toolbox; other applications will be derived from that toolbox.
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Interlocking system for modular model railroading. The goal is the development of hard- and software for an model interlocking interfacing on the one hand to the model railroad and on the other to the model of the userinterface of an real interlocking.
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Custom VMs From 1 to 96 vCPUs With 99.95% UptimeLive migration and automatic failover keep workloads online through maintenance. One free e2-micro VM every month.
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MEMBPLUGIN
MEMBPLUGIN: studying membrane complexity in VMD
MEMBPLUGIN is a membrane analysis tool for molecular-dynamics simulations. It is a collection of visual and command-line tools that can be run within the Visual Molecular Dynamics (VMD) environment to analyze biomolecular simulations of lipid bilayers. -
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MacPHREEQC
macOS version of the USGS geochemical modeling code PHREEQC
The macOS version of PHREEQC, a program developed by the U.S. Geological Survey for speciation, batch-reaction, one-dimensional transport, and inverse geochemical calculations -
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Point Cloud Skinner for Blender
Python script (addon) for Blender to skin point cloud (verts to face).
What is Point Cloud Skinner? This is a Python script for Blender 2.6x or later and allows you to create a surface from just a cloud of vertices. You can get a complete 3D mesh with faces on it out of just a point cloud that has only vertices and no faces. Please watch the video to get the idea of what the script can do for your artwork. Features: This script, Point Cloud Skinner can skin a cloud of vertices, which means to create a 3D surfaced mesh out of just a cloud of vertices that has no faces. It can skin any shapes of point clouds, such as a surveyed geography point cloud that represents a landform somewhere, a fluid volumetric point cloud obtained by numerical fluid simulation, or anything you like. You can see some sample meshes that the script produced in "Results" part below. -
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Raman Tool Set
Analysis of Raman spectra and spectroscopy data.
Raman Tool Set has been developed as a user-friendly free software for processing and analysis of Raman spectra and spectroscopy data. RamanToolSet offers the following functions for processing: - scaling spectra - offset spectra - cut spectra - averaging spectra - smoothing spectra - normalizing spectra - background subtraction - polynomial subtraction The following analytical tools have been implemented: - Principal Component Analysis (PCA) - Clustering analysis - Extended Multiplicative Signal Correction (EMSC) analysis The following mapping tools have been implemented: - Producing single spectra files from Renishaw, Witec and Horiba mapping files (.txt) - Mapping the single spectra so imported from Renishaw, Witec or Horiba files - PCA is performed over mapping spectra and PCA-Scores are mapped - ICA is performed over mapping spectra and ICA-coefficients are mapped - Clustering analysis is performed over mapping spectra and Clusters are mapped -
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SMASH
Massively parallel software for quantum chemistry calculations
Scalable Molecular Analysis Solver for High-performance computing systems (SMASH) is massively parallel software for quantum chemistry calculations and released under the Apache 2.0 open source license. It is currently capable of energy, analytical gradient, and geometry optimization calculations of Hartree-Fock theory and Density Functional Theory (DFT), and energy calculations of Second-order Moller-Plesset (MP2) perturbation theory. DFT calculations can be performed on 100,000 CPU cores with high parallel efficiency. -
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VisualMathEditor
LaTeX, AscciMath and MathML editor developed in Javascript and HTML
Visual Math Editor New Version “ It now offers more than 730 LaTeX symbols and 210 AsciiMath symbols. It now works in all modern browsers without plugin. It now works with LaTeX, AsciiMath, MathML and HTML syntaxes. It improves the ergonomics of the user interface.” VisualMathEditor is a LaTeX, AsciiMath and MathML editor developed in Javascript and HTML. It operates independently on the web or locally. It has many features and menus that help the equation-entry and allow their posting and backup. Formulas : - math physics symbols - operation symbols - logical symbols - arrows symbols - relation symbols - bracket symbols - differential symbols - functions symbols - integral symbols - matrix symbols - sqrt & frac symbols - sub & sup symbols - sum & prod symbols - greek characters -
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at3mod
Improved LabVIEW drivers for Andor sCMOS cameras
This project provides an improved interface to the atcoreA driver used to control Andor cameras using SDK3 - namely their sCMOS cameras Neo and Zyla. The interface now includes LabVIEW error handling and buffer handling code along with examples of how to operate the cameras from a dataflow environment. -
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blueCFD-SingleCore
blueCFD-SingleCore is a subset of blueCFD-Core
FSD blueCAPE Lda is responsible for blueCFD®, blueCFD®-Core, blueCFD-SingleCore and this version of cross-compiled OpenFOAM®. blueCFD-SingleCore is a subset of blueCFD-Core, providing the same high quality cross-compiled build version of OpenFOAM® for Windows XP/Vista/7 (32 and 64bit) as in blueCFD-Core, with some additional tweaks, executables and scripts, in order to maintain usability under a Windows environment. ParaView and MSys are not integrated automatically and MPI support is not provided. For more details, please visit the wiki: https://sourceforge.net/p/bluecfd-sc/wiki/ Note: As of blueCFD-Core 2016-1, the blueCFD-SingleCore project is replaced by: http://bluecfd.github.io/Core/ Disclaimer: * blueCFD® is a registered trade mark owned by FSD blueCAPE Lda. * This offering is not approved nor endorsed by OpenCFD Limited nor ESI Group, the producer of the OpenFOAM software via www.openfoam.com and owner of the OPENFOAM® and OpenCFD® trade marks. -
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bootf2BCA
computing f2 bootstrap CI BCA
Computing similarity factor (f2) bootstrap bias corrected and accelerated confidence interval -
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rDock
A Fast, OpenSource Program for Docking Ligands to Proteins and N.Acids
rDock is a fast and versatile Open Source docking program that can be used to dock small molecules against proteins and nucleic acids. It is designed for High Throughput Virtual Screening (HTVS) campaigns and Binding Mode prediction studies. rDock is mainly written in C++ and accessory scripts and programs are written in C++, perl or python languages. The full rDock software package requires less than 50 MB of hard disk space and it is compilable in all Linux computers. Thanks to its design and implementation, it can be installed on a computation cluster and deployed on an unlimited number of CPUs, allowing HTVS campaigns to be carried out in a matter of days. The rDock program was developed from 1998 to 2006 by the software team at RiboTargets (subsequently Vernalis (R&D) Ltd). In 2006, the software was licensed to the University of York for maintenance and distribution. In 2012, Vernalis and the University of York agreed to release the program as Open Source software. -
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Open Automation
Building automation (like KNX or OpenHAB) software (like CometVisu).
This project aims to provide software usefull in automation tasks like building automation. Different backends are supported like KNX or OpenHAB. Note: The project has moved to GitHub. Please consult: https://github.com/CometVisu/CometVisu - for the CometVisu https://github.com/OpenAutomationProject - for the different OpenAutomation subprojects -
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Qfsm
A graphical Finite State Machine (FSM) designer.
A graphical tool for designing finite state machines and exporting them to Hardware Description Languages, such as VHDL, AHDL, Verilog, or Ragel/SMC files for C, C++, Objective-C, Java, Python, PHP, Perl, Lua code generation. -
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A PHP and JavaScript Web mapping framework and demo application for MapServer (see http://mapserver.gis.umn.edu) based on MapScript/PHP.
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ALAMODE
Ab initio simulator for thermal transport and lattice anharmonicity
ALAMODE is designed for analyzing lattice anharmonicity and lattice thermal conductivity of solids. By using an external DFT package such as VASP and Quantum ESPRESSO, you can extract harmonic and anharmonic force constants straightforwardly with ALAMODE. Using the anharmonic force constants, you can also calculate lattice thermal conductivity from first principles. For more information about ALAMODE, please visit the following webpages: Documentation : http://alamode.readthedocs.io/en/latest/ git repository : https://github.com/ttadano/alamode -
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MitoSAlt
Identification of mitochondrial structural alterations
MitoSAlt is a pipeline to identify large deletions and duplications in human and mouse mitochondrial genomes from next generation whole genome/exome sequencing data. The pipeline is capable of analyzing any circular genome in principle, as long as a proper configuration file is provided. -
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NGSEP
NGSEP (Next Generation Sequencing Experience Platform)
NGSEP is an integrated framework for analysis of short and long DNA high throughput sequencing reads. The current version provides functionalities for both de-novo and reference guided analysis of sequencing data, including genome assembly, read mapping, variants detection and genotyping and de-novo analysis of data generated from reduced representation protocols. NGSEP also provides modules for analysis of genomic variation databases (VCF files), including functional annotation, filtering, format conversion, comparison, clustering, imputation, introgression analysis and different kinds of statistics. Since version 4, we provide functionalities for management of genomes and transcriptomes, including genome alignment and annotation of transposable elements. A complete list of functionalities is available in our wiki (https://sourceforge.net/p/ngsep/wiki/Home/). BEFORE DOWNLOADING: The green button directs to the jar for command line usage. See the wiki for the GUI and other options
