Compartmental BNGL implementation of the SNARE complex model. by Adam Husar (18437351)

Python implementation of a wildfire propagation example using m:n-CAk over Z and R. by Pau Fonseca i Casas (9507338)

Parallel pipeline elements. by Ramona Leenings (11167294)

Parallel plot showing hyperparameter exploration. by Ramona Leenings (11167294)

Python code for hierarchical cluster analysis of detected R-strategies from rule-based NLP on 500 circular economy definitions by Zahir Barahmand (18008947)

“…</p><p dir="ltr">This Python code was optimized and debugged using ChatGPT-4o to ensure implementation efficiency, accuracy, and clarity.…”

Morris and Sobol Sensitivity Analyses of Composite Indicators Calculated Using the Ideal Point Aggregation Function (ver. 01) - Python Code by Arika Ligmann-Zielinska (14669582)

Example of loading and running BNGL model in MCell4. by Adam Husar (18437351)

DataSheet_1_AirSeaFluxCode: Open-source software for calculating turbulent air-sea fluxes from meteorological parameters.pdf by Stavroula Biri (14571707)

“…In this paper, we present a Python 3.6 (or higher) open-source software package “AirSeaFluxCode” for the computation of the heat (latent and sensible) and momentum fluxes. …”

A high-performance and highly reusable fast multipole method library and its application to solvation energy calculations at virus-scale by Tingyu Wang (12342757)

BOFdat Step 3: Identifying species-specific metabolic end goals. by Jean-Christophe Lachance (6619307)

PTPC-UHT bounce by David Parry (22169299)

“…<br>It contains the full Python implementation of the PTPC bounce model (<code>PTPC_UHT_bounce.py</code>) and representative outputs used to generate the figures in the paper. …”

Codes and description of DCNN models by DQ Yang (7107140)

“…<div>1.We privoded codes of three DCNN model: AlexNet, Inception,and ResNet-18, which were implemented based on Python 3.5 and TensorFlow 1.14.…”

Data_Sheet_1_Mitigating Computer Limitations in Replicating Numerical Simulations of a Neural Network Model With Hodgkin-Huxley-Type Neurons.pdf by Paulo H. Lopes (12533545)

“…The original source code in C/C++ was carefully refactored to mitigate the lack of replicability; moreover, it was re-implemented to other programming languages/software (XPP/XPPAUT, Python and Matlab) and executed under two operating systems (Windows and Linux). …”

Code by Baoqiang Chen (21099509)

Advancing Solar Magnetic Field Modeling by Carlos António (21257432)

“…<br><br>We developed a significantly faster Python code built upon a functional optimization framework previously proposed and implemented by our team. …”

Map Matching on Low Sampling Rate Trajectories Through Deep Inverse Reinforcement Learning and Multi Intention Modeling by Reza Safarzadeh (18072472)

“…</p><p>---------</p><p dir="ltr">Sample data are provided in the "Data" folder to show how the code works.</p><p dir="ltr">This repository contains the following Python codes:</p><p><br></p><p dir="ltr"><br></p><ul><li>`environmnet.py`: Contains the implementation of the environment used for IRL. …”

Data_Sheet_1_The Dmipy Toolbox: Diffusion MRI Multi-Compartment Modeling and Microstructure Recovery Made Easy.PDF by Rutger H. J. Fick (7497242)

“…To address this fact, we present Diffusion Microstructure Imaging in Python (Dmipy), an open-source toolbox implementing PGSE-based MC-modeling in its most general form. …”

Supplementary file 1_ParaDeep: sequence-based deep learning for residue-level paratope prediction using chain-aware BiLSTM-CNN models.docx by Piyachat Udomwong (22563212)

“…The implementation is freely available at https://github.com/PiyachatU/ParaDeep, with Python (PyTorch) code and a Google Colab interface for ease of use.…”

<i>PyRates</i> software structure. by Richard Gast (8129451)

“…<p><b>(A)</b> Depiction of the user interface: <i>PyRates</i> models are implemented via different templates that can be defined via a <i>YAML</i> or <i>Python</i> interface. …”

MCCN Case Study 3 - Select optimal survey locality by Donald Hobern (21435904)