Search Results for "chemical"
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Showing 278 open source projects for "chemical"
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Catalyst.jl
Chemical reaction network and systems biology interface
Catalyst.jl is a symbolic modeling package for analysis and high-performance simulation of chemical reaction networks. Catalyst defines symbolic ReactionSystems, which can be created programmatically or easily specified using Catalyst's domain-specific language (DSL). Leveraging ModelingToolkit and Symbolics.jl, Catalyst enables large-scale simulations through auto-vectorization and parallelism. Symbolic ReactionSystems can be used to generate ModelingToolkit-based models, allowing the easy simulation and parameter estimation of mass action ODE models, Chemical Langevin SDE models, stochastic chemical kinetics jump process models, and more. ... -
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SciSpaCy
A full spaCy pipeline and models for scientific/biomedical documents
ScispaCy is a spaCy extension optimized for processing biomedical and scientific text, providing domain-specific NLP models for tasks like named entity recognition (NER) and dependency parsing. -
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Chemical Trajectory Analyzer
A software package for processing and analyzing chemical trajectories
...Theory Comput. 11 (2015), 2517-2524 L.C.Kröger, W.A.Kopp, M.Döntgen, K.Leonhard, "Assessing Statistical Uncertainties of Rare Events in Reactive Molecular Dynamics Simulations", J. Chem. Theory Comput. 13 (2017), 3955-3960 M.Döntgen, F.Schmalz, W.A.Kopp, L.C.Kröger, K.Leonhard, "Automated Chemical Kinetic Modeling via Hybrid Reactive Molecular Dynamics and Quantum Chemistry Simulations", J. Chem. Inf. Model. 58 (2018), 1343-1355 Check the Wiki for bug reports and fixes. -
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Kubermatic Kubernetes Platform
The Central Kubernetes Management Platform For Any Infrastructure
Kubermatic Kubernetes Platform is in an open source project to centrally manage the global automation of thousands of Kubernetes clusters across multicloud, on-prem and edge with unparalleled density and resilience. Kubermatic Kubernetes Platform Community Edition (CE) is available freely under the Apache License, Version 2.0. Kubermatic Kubernetes Platform Enterprise Edition (EE) includes premium features that are most useful for organizations with large-scale Kubernetes installations with... -
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Materials Discovery: GNoME
AI discovers 520000 stable inorganic crystal structures for research
...Using GNoME, DeepMind identified 381,000 new stable materials, later expanding the dataset to include over 520,000 materials within 1 meV/atom of the convex hull as of August 2024. The repository provides datasets, model definitions, and interactive Colabs for exploring these materials, computing decomposition energies, and visualizing chemical families. Additionally, it includes JAX-based implementations of GNoME and Nequip—the latter being used to train interatomic potentials for dynamic simulations. -
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ChemCrow
Chemcrow
ChemCrow is an AI-powered framework designed to assist in chemical research and discovery. It integrates AI models with chemical knowledge bases to provide intelligent recommendations for synthesis planning, reaction prediction, and material discovery. This tool helps automate and accelerate research in computational chemistry and drug development. -
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This program computes Density Derived Electrostatic and Chemical (DDEC) net atomic charges and atomic multipoles for periodic and nonperiodic systems. These chemically meaningful net atomic charges approximately reproduce the electrostatic potential.
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ChemCanvas
Chemical structure drawing tool
This is targeted to be the most intuitive opensource 2D chemical drawing tool. You can draw organic chemical structures and reactions very easily and quickly. Available to download for Windows and Linux (AppImage, Flatpak, Snap) -
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TOPCEE
Python GUI tool for estimating plant CAPEX, OPEX, and profitability
TOPCEE (Toyese Oyegoke Process Cost & Economic Evaluator) is a GUI-based Python application designed to assist chemical engineers, researchers, and students in evaluating the profitability of chemical/process plants. The app calculates capital and operational expenditures (CAPEX & OPEX) and provides key profitability metrics such as: **ROI (Return on Investment) **IRR (Internal Rate of Return) **NPV (Net Present Value) **Payback Period (Discounted and Non-Discounted) **Benefit-Cost Ratios Users input plant-specific values like feedstock costs, operating time, product price, and equipment cost — and the tool generates real-time visualizations and results. ... -
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The Chemistry Development Kit (CDK) is a scientific, LGPL-ed library for bio- and cheminformatics and computational chemistry written in Java. The main home page of the CDK is now at: http://cdk.github.io
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QuMuLuS++
A quantum chemical code based on wave functions and pseudopotentials.
What is QuMuLuS++? QuMuLuS++ is an open source quantum chemical program, i. e., a program for the computation of molecular properties with quantum chemical models. How do I obtain a copy of the code? hg clone http://hg.code.sf.net/p/qumulus/code qumulus-code How do I install the code? Installing the code for the first time, follow the description given in the INSTALL file in the source directory. -
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ASALI
ASALI is an open-source code for chemical engineers
Do you work with chemical reactors? Are you curious about them? ASALI is the open-source code that you are looking for. Chemical reactor models, transport/thermodynamic properties of gases, equilibrium calculations. ASALI couples all these features with an user friendly graphical interface. Modeling chemical reactors has never been so easy. -
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DWSIM - Open Source Process Simulator
Simulate chemical processes using advanced thermodynamic models
DWSIM is an open source, CAPE-OPEN compliant chemical process simulator for Windows, Linux and macOS systems. Written in VB.NET and C#, DWSIM features a comprehensive set of unit operations, advanced thermodynamic models, support for reacting systems, petroleum characterization tools and a fully-featured graphical interface. DWSIM Pro is a commercial sibling of DWSIM built on top of open-source software. -
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VK_Periodic_Table_branch_mmmv
Periodic Table of Chemical Elements that requires an HTTP server.
A shallow fork of https://github.com/valter1977/Pertable/ with all goodies from upstream and most flaws/bugs by me. The Periotic Table of Chemical Elements has been implemented at upstream by Valter Kiisk https://kodu.ut.ee/~kiisk/pertable/pertable.htm and its technology is HTML+CSS+JavaScript. The JavaScript downloads data at runtime, so a HTTP server is needed to view that table of chemical elements. The HTTP server has been bundled to this project. -
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SDF Merger
Desktop application for merging multiple SDF files into a single SDF
...Language: Python 3 2. GUI Framework: Tkinter 3. Chemistry Library: RDKit for chemical data processing 4. File Formats: Input/Output in SDF format Citation Md. Ismiel Hossen, A. (2026). SDF Merger: A Desktop and Web Tool for Merging Chemical Structure Data Files (v1.1). Zenodo. https://doi.org/10.5281/zenodo.18291398 -
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AMBIT:Chemical Structure DB&Web Service
Chemical structures database & machine learning with web services API
AMBIT offers a cheminformatics data management for chemical substances, structures and nanomaterials. Flexible structure, similarity and study queries storage, descriptor calculation and predictive models building via REST web services.User interface for creating read across assessment and generating reports, aligned with regulatory and industrial requirements. Command line applications also available. -
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open enventory
Electronic Laboratory Notebook, chemical inventory & more
Web-based Electronic Laboratory Notebook (ELN) with integrated Chemical Inventory by the group of Prof. Goossen (then TU Kaiserslautern, Germany), based on PHP 8+/MariaDB. Allows (sub-)structure search, reaction planning, management of spectra and literature. -
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PyRx - Virtual Screening Tool
Virtual Screening software for Computational Drug Discovery
...While it is true that there is no magic button in the drug discovery process, PyRx includes docking wizard with easy-to-use user interface which makes it a valuable tool for Computer-Aided Drug Design. PyRx also includes chemical spreadsheet-like functionality and powerful visualization engine that are essential for Rational Drug Design. Please visits PyRx home page to learn more about PyRx and watch videos on how to use it. -
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ToxFromSmiles
BiLTM models predicting endocrine toxicity from SMILES strings
This project aims at building XAI models for prediction of endocrine toxicity from SMILES strings alone, i.e. without the usage of explicit chemical descriptors. We use CAPTUM for model visual interpretation in terms of molecular substructures. -
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Obsidian TikZJax
Render LaTeX and TikZ diagrams in your notes
A plugin for Obsidian that lets you render LaTeX and TikZ diagrams in your notes. You can render graphs, figures, circuits, chemical diagrams, commutative diagrams, and more. -
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Jmol
An interactive viewer for three-dimensional chemical structures.
Over 1,000,000 page views per month. Jmol/JSmol is a molecular viewer for 3D chemical structures that runs in four independent modes: an HTML5-only web application utilizing jQuery, a Java applet, a stand-alone Java program (Jmol.jar), and a "headless" server-side component (JmolData.jar). Jmol can read many file types, including PDB, CIF, SDF, MOL, PyMOL PSE files, and Spartan files, as well as output from Gaussian, GAMESS, MOPAC, VASP, CRYSTAL, CASTEP, QuantumEspresso, VMD, and many other quantum chemistry programs. ... -
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XDrawChem
XDrawChem is an application for chemistry drawing and analysis.
XDrawChem is an application for drawing and analyzing chemical structures and reactions. Please visit the website for full details. Download source and binary releases here, and clone the source from GitHub at the external link above. -
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C-BerryTrans
Calculation of Berry-curvature-driven AHC or ANC using WIEN2k
...To ensure efficiency, the code parallelizes Berry curvature evaluation over k-points using OpenMP and stores band-resolved data in binary format, enabling rapid post-processing of AHC and ANC across a wide range of chemical potentials and temperatures in a single run. Please cite the paper mentioned below while using the C-BerryTrans code for your research: V. Pandey and S.K. Pandey, https://arxiv.org/abs/2509.24071. -
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OSRA is a utility designed to convert graphical representations of chemical structures and reactions, as they appear in journal articles, patent documents, textbooks, trade magazines etc., into SMILES or SD file format- a computer recognizable molecular structure You can find links to the binary executables here: https://sourceforge.net/p/osra/wiki/Download/