Exercises of the AAU-DA Summer School 2025 by Leire Retegui-Schiettekatte (18008506)

Online Resource 3: Word Cloud Dataset and Code by Jessica Zylla (17692920)

“…<p dir="ltr">Online Resource 3: Word Cloud Dataset and Code. This set of files are part of Online Resource 3, which allows readers to implement a Jupyter Notebook Python program to create a word cloud based on survey responses. …”

2D Orthogonal Planes Split: <b>Python</b> and <b>MATLAB</b> code | <b>Source Images</b> for Figures by Nektarios Valous (20715650)

“…The output files generated by the code include results from both Python and MATLAB implementations; these output images are provided as validation, demonstrating that both implementations produce matching results.…”

Finites differences python code to solve CH equation with a source term and Comsol routine to solve Brusselator equation in radial domains. by Giulio Facchini (9031490)

“…<p dir="ltr"><b><i>* Cahn-Hilliard simulations *</i></b><br>Finite difference code implementing the modified Cahn Hilliard equation with a forward Euler scheme and the possibility to parallelize the solver using the numba python library.…”

Five Operator Lattice Simulation by James McDaniel (22522571)

“…</p><p dir="ltr">Running the included file <code>five_operator_lattice_sim.py</code> (Python 3.14 + NumPy 2.1) reproduces the dynamic interactions and figures reported in Appendix A of the paper, generating time-series data that demonstrate operator balance, instability, and renewal cycles.…”

This package of Python scripts implements the proposed unsupervised sentiment analysis approach.... by Xiaohan Yu (7525940)

“…<p>This package of Python scripts implements the proposed unsupervised sentiment analysis approach. …”

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. …”

Reaction Alignment of the Tricarboxylic Acid (TCA) Cycle Network. by Adel Heydarabadipour (22290905)

Performance Benchmark: SBMLNetwork vs. SBMLDiagrams Auto-layout. by Adel Heydarabadipour (22290905)

Data files accompanying our PLoS One publication by Peter Hinow (21810605)

Overview of deep learning terminology. by Aaron E. Maxwell (8840882)

“…Training loops are implemented with the luz package. The geodl package provides utility functions for creating raster masks or labels from vector-based geospatial data and image chips and associated masks from larger files and extents. …”

RealBench: A Repo-Level Code Generation Benchmark Aligned with Real-World Software Development Practices by RealBench RealBench (22275393)

“…<br><br><br></pre><p dir="ltr">This repository contains the implementation of **RealBench**, a comprehensive benchmark and evaluation framework for repository-level code aligned with real-world software development practices.…”

Accompanying data files (Melbourne, Washington DC, Singapore, and NYC-Manhattan) by Winston Yap (13771969)

“…<p dir="ltr">Supporting files to implement GNN training for Melbourne, Singapore, Washington DC, and NYC-Manhattan. …”

Supporting data for "Interpreting complex ecological patterns and processes across differentscales using Artificial Intelligence" by Yifei Gu (9507104)

“…</p><p dir="ltr">Firstly, a Python package HSC3D, was developed to quantify habitat structural complexity (HSC) at the community level. …”

Single Cell DNA methylation data for Human Brain altas MajorType allc files (CG+CH) by Wubin Ding (11823941)

“…</p><p dir="ltr">PMID: 37824674</p><p dir="ltr"><br></p><p dir="ltr">How to download</p><p dir="ltr">To quickly download the whole folder, Python package pyfigshare can be implemented. please refer to pyfigshare documentation: https://github.com/DingWB/pyfigshare</p><p dir="ltr">for example: figshare download 28424780 -o downlnoaded_data</p>…”

Single Cell DNA methylation data for Human Brain altas (MajorType+Region CG allc files) by Wubin Ding (11823941)

“…</p><p dir="ltr">PMID: 37824674</p><p><br></p><h2>How to download</h2><p dir="ltr">To quickly download the whole folder, Python package <a href="https://github.com/DingWB/pyfigshare" rel="noreferrer" target="_blank">pyfigshare</a> can be implemented. please refer to pyfigshare documentation: <a href="https://github.com/DingWB/pyfigshare" rel="noreferrer" target="_blank">https://github.com/DingWB/pyfigshare</a></p><p dir="ltr">for example: <code>figshare download 28424780 -o downlnoaded_data</code></p>…”

Executable Books in Robotics by Murilo Marinho (21508857)

“…In this work, to showcase the results of the Open Research Fellowship 24-25 in the field of Robotics, I show one way to help bridge the theory-practice gap creating a fully open CC BY-NC-SA 4.0 licensed executable textbook in Python, based on Jupyter notebooks. …”

Fast, FAIR, and Scalable: Managing Big Data in HPC with Zarr by Alfonso Ladino (21447002)

“…(NEXRAD), using open-source tools from the Python ecosystem such as Xarray, Xradar, and Dask to enable efficient parallel processing and scalable analysis. …”

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

Demonstration of Isosteric Heat of Adsorption Calculation using AIFs and pyGAPs by Jack Evans (11275386)

“…</p><p dir="ltr">The calculation is performed using the Clausius-Clapeyron method as implemented in the <code><strong>pyGAPS</strong></code> Python library for adsorption science. …”