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The format of the simulation reports
Published 2025“…To enable efficient calculation of extracellular signals from large neural network simulations, we have developed <i>BlueRecording</i>, a pipeline consisting of standalone Python code, along with extensions to the Neurodamus simulation control application, the CoreNEURON computation engine, and the SONATA data format, to permit online calculation of such signals. …”
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The format of the weights file
Published 2025“…To enable efficient calculation of extracellular signals from large neural network simulations, we have developed <i>BlueRecording</i>, a pipeline consisting of standalone Python code, along with extensions to the Neurodamus simulation control application, the CoreNEURON computation engine, and the SONATA data format, to permit online calculation of such signals. …”
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Supporting data for "Interpreting complex ecological patterns and processes across differentscales using Artificial Intelligence"
Published 2025“…<p dir="ltr">This thesis bridges the gap between field observations and the empirical understanding of ecological systems by applying AI models at different spatial scales and hierarchical levels to study ecological complexity. The detailed implementation, source code and demo dataset are included in dedicated folders for each chapter.…”
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Efficient, Hierarchical, and Object-Oriented Electronic Structure Interfaces for Direct Nonadiabatic Dynamics Simulations
Published 2025“…We present a novel, flexible framework for electronic structure interfaces designed for nonadiabatic dynamics simulations, implemented in Python 3 using concepts of object-oriented programming. …”
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Code
Published 2025“…</p><p><br></p><p dir="ltr">This architecture was implemented using the PyTorch library and trained using cross-entropy loss. …”
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Exploring the integration of metaverse technologies in engineering education through the SAMR model
Published 2025“…It demonstrates the successful implementation of the model in practice and provides examples of effective practices in the context of the CAVE (Cave Automatic Virtual Environment) metaverse. …”
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CSMILES: A Compact, Human-Readable SMILES Extension for Conformations
Published 2025“…A two-way conversion from three-dimensional (3D) structure to CSMILES has been implemented, and the article is accompanied by a Python code which effectuates such conversions. …”
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CSMILES: A Compact, Human-Readable SMILES Extension for Conformations
Published 2025“…A two-way conversion from three-dimensional (3D) structure to CSMILES has been implemented, and the article is accompanied by a Python code which effectuates such conversions. …”
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Scripts, data and figures underpinning 'Towards the Creation of Legible Octilinear Power Grid Diagrams Using Mixed Integer Linear Programming'
Published 2024“…<p dir="ltr">These Python notebooks implement the techniques described in the paper "Towards the Creation of Legible Octilinear Power Grid Diagrams Using Mixed Integer Linear Programming".…”
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High-Throughput Mass Spectral Library Searching of Small Molecules in R with NIST MSPepSearch
Published 2025“…Despite the availability of numerous library search algorithms, those developed by NIST and implemented in MS Search remain predominant, partly because commercial databases (e.g., NIST, Wiley) are distributed in proprietary formats inaccessible to custom code. …”
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Data&Codes.zip
Published 2025“…</p><p dir="ltr">To facilitate the widespread use of the proposed framework, we have implemented it as the <b><i>ESLocalIndi</i></b> open-source package in Python, making it easily accessible to geographers. …”
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Simulation Code and Raw Data
Published 2025“…<p dir="ltr">Reproducible code (Python) implementing a symmetrized split-step Fourier method (SSFM), with configuration files for all scans. …”
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software code of NeoDesign
Published 2024“…<h2>Implementation and Dependencies</h2><p dir="ltr">neoDesign was developed with python (recommend>3.9) and shell (bash) language. …”
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Reproducible Code and Data for figures
Published 2025“…</i></p><p dir="ltr">It contains:</p><p dir="ltr">✅ <b>Python Code</b> – Scripts used for data preprocessing, and visualization.…”
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DA-Faster-RCNN code
Published 2025“…The implementation is written in Python using PyTorch and Detectron2.…”
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