Scope of our collection of pathogen models of metabolism. حسب Emma M. Glass (13102872)

"…This cladogram was created using the GraPhlAn python tool. (b) Our collection of GENREs represents 9 phyla, 17 classes, 36 orders, 94 genera, and 345 species of pathogens. …"

Example provenance graph of exploring the difference between two simulation models by visualizing simulation data generated from two independent simulation experiments. حسب Andreas Ruscheinski (7880759)

Methodological Approach Based on Structural Parameters, Vibrational Frequencies, and MMFF94 Bond Charge Increments for Platinum-Based Compounds حسب Gloria Castañeda-Valencia (20758502)

"…The developed bci optimization tool, based on MMFF94, was implemented using a Python code made available at https://github.com/molmodcs/bci_solver. …"

Environmental Census: Modeling Synthetic Biology Ecological Risk with Metagenomic Enzymatic Data and High-Performance Computing حسب John Docter (22772100)

"…Here, we present <i>EnCen</i>, a risk assessment Python software package that predicts the environmental range of engineered microorganisms through annotated functional one-hot-encoded similarity between the engineered microorganism and resident microorganisms of a given environment. …"

Modeling organoid deformation. حسب Julien Laussu (3554030)

Global blue carbon losses from salt marshes exceed restoration gains حسب Yuhan Zheng (21610220)

"…<h4>This repository contains the main code used to generate the figures and results presented in the manuscript.…"

SRL OF TIM حسب Jefferson Rodrigo Speck (21510347)

"…</li><li><code><strong>plot_scripts/</strong></code>: Includes data files and Python scripts used to generate the visualizations presented in the review (e.g., bar charts, pie charts, distribution graphs).…"

<b>China’s naturally regenerated forests currently have greater aboveground carbon accumulation rates than newly planted forests</b> حسب Kai Cheng (18367101)

"…As well as, the Google earth engine code for detecting their ages and extents, python code for modelling the carbon accumulation rate of China’s PYF and NYF, python code for evaluating the influence of various factors on the patterns and differences in AGC accumulation rates between NYF and PYF in China.…"

<b>Myelin oligodendrocyte glycoprotein (MOG) Degradome Foundation Atlas</b> حسب Axel Petzold (7076261)

"…</li></ul><h3>Reproducibility and Code Availability</h3><p dir="ltr">Dataset generation is fully reproducible using open-source tools:</p><ul><li>Python</li><li>SAS</li></ul><p dir="ltr">All required scripts are included in the repository and are well documented to support local replication and custom adaptations. …"

Void-Center Galaxies and the Gravity of Probability Framework: Pre-DESI Consistency with VGS 12 and NGC 6789 حسب Jordan Waters (21620558)

"…<br><br><br><b>ORCID ID: https://orcid.org/0009-0009-0793-8089</b><br></p><p dir="ltr"><b>Code Availability:</b></p><p dir="ltr"><b>All Python tools used for GoP simulations and predictions are available at:</b></p><p dir="ltr"><b>https://github.com/Jwaters290/GoP-Probabilistic-Curvature</b><br><br>The Gravity of Probability framework is implemented in this public Python codebase that reproduces all published GoP predictions from preexisting DESI data, using a single fixed set of global parameters. …"

MEG Dataset and Analysis Scripts for “The Effects of Task Similarity During Representation Learning in Brains and Neural Networks” حسب Nicholas Menghi (22426174)

"…</p><h3><b>Contents</b></h3><ul><li><b>MEG data</b> (results of the correlation between empirical and model matrices at different dimensionalities and domains)</li><li><b>Behavioral data</b> (behavioural accuracy performance: "Spatual Source Data")</li><li><b>Analysis script</b></li><li><b>Python package </b>developed to help with retrieving and computing simple operations</li></ul><h3><b>Data format</b></h3><p dir="ltr">Data are organized according to a structured folder layout (see <code>README.md</code> in the repository) and include:</p><ul><li><code>npy</code> MEG files (numpy)</li><li><code>.csv</code> behavioral files</li><li>Python scripts using MNE-Python for statistical analysis and visualization</li></ul><h3><b>Usage</b></h3><p dir="ltr">The provided scripts reproduce the statistical tests and figures presented in the manuscript. …"

<b>EEG dataset for multi-class Chinese character stroke and pinyin vowel handwriting imagery (16 subjects, CCS-HI & SV-HI)</b> حسب Fan Wang (22125886)

"…Preprocessing & Trial Integrity</h3><p dir="ltr">The publicly released dataset contains raw EEG data (no preprocessing); preprocessing (via MNE-Python, code in code folder) was only conducted for model training/testing: 1–40 Hz Butterworth bandpass filtering + 50 Hz notch filtering for noise reduction, manual bad channel labeling (EEGLAB) and spherical spline interpolation (per BIDS _channels.tsv), downsampling from 1000 Hz to 250 Hz, z-score normalization per trial, and epoch extraction of the 0–4 s imagery period (for both tasks). …"

dataset حسب Jingyi Chang (20404166)

"…<p dir="ltr">The R and Python code used to perform the analysis and generate the results and visualizations presented in the forest canopy height, and the related data and results produced in the research analyses.…"

Moulin distributions during 2016-2021 on the southwest Greenland Ice Sheet حسب Kang Yang (7323734)

"…</p><p><br></p><ul><li>00_Satellite-derived moulins: Moulins directly mapped from Sentinel-2 imagery, representing actual moulin positions;</li><li>01_Snapped moulins: Moulins snapped to DEM-modeled supraglacial drainage networks, primarily used for analyses;</li><li>02_Moulin recurrences: Recurring moulins determined from the snapped moulins;</li><li>03_Internally drained catchments: Internally drained catchment (IDC) associated with each moulin;</li><li>04_Surface meltwater runoff: surface meltwater runoff calculated from MAR for the study area, elevation bins, and IDCs; </li><li>05_DEM-derived: Topographic features modeled from ArcticDEM, including elevation bins, depressions and drainage networks;</li><li>06_GWR: Variables for conducting geographically weighted regression (GWR) analysis;</li></ul><p><br></p><ul><li>Code_01_Mapping moulins on the southwestern GrIS.ipynb: A Jupyter Notebook to analyze moulin distributions, reproducing most of the analyses and figures presented in the manuscript using the provided datasets;</li><li>Code_02_pre1_calculate Strain Rate from XY ice velocity.py: A preprocessing Python script to calculate strain rate for the GWR analysis;</li><li>Code_02_pre2_calculate Driving Stress from ice thickness and surface slope.py: A preprocessing Python script to calculate driving stress for the GWR analysis;</li><li>Code_02_GWR analysis.ipynb: A Jupyter Notebook to conduct the GWR analysis using the provided datasets.…"

<b>Alpha-Synuclein Degradome Foundation Atlas</b> حسب Axel Petzold (7076261)

"…All scripts are provided and fully documented in the accompanying publication [1] and dataset/code repositories [2,3].</p><p dir="ltr">This Atlas is ideal for researchers in neuroscience, proteomics, bioinformatics, and AI who are building tools to understand, predict, and intervene in protein degradation pathways relevant to human disease.…"

Supporting data for "Optimisation of Trust in Collaborative Human-Machine Intelligence in Construction" حسب Hao Chen (9696848)

"…The first folder contains Scopus-derived data alongside analytical results that substantiate the figures presented in Chapter 1. The second folder mirrors the structure of the first, encompassing Scopus data and Python source code used to generate the visualizations featured in Chapter 2. …"

A Quick Guide to Prompt Engineering: Using Generative AI Wisely in Learning and Work حسب Uce Indahyanti (21324434)

Attention and Cognitive Workload حسب Rui Varandas (11900993)

"…</p><p dir="ltr">The data for subject 2 do not include the 2nd part of the acquisition (python task) because the equipment stopped acquiring; subject 3 has the 1st (N-Back task and mental subtraction) and the 2nd part (python tutorial) together in the <code>First part</code> folder (file <code>D1_S3_PB_description.json</code> indicates the start and end of each task); subject 4 only has the mental subtraction task in the 1st part acquisition and in subject 8, the subtraction task data is included in the 2nd part acquisition, along with python task.…"

<b>Beyond absolute space: Modeling disease dispersion and reactive actions from a multi-spatialization perspective</b> حسب Shiran Zhong (14518376)

"…</p><h3>Running the Code</h3><p dir="ltr">· To run the Python code (preferably in Jupyter Notebook), ensure that all dependencies are installed by running: <i>pip install pandas pgmpy</i>. …"

Supplementary Materials for the article: ”Damped sectorial oscillations of an acoustically levitated droplet". حسب Taisiia Nagorskaia (22557095)

"…</li><li><b>Supplementary Video S3 (</b><i>S3_Video_Damped_oscillations.avi</i><b>):</b> High-speed footage of the damped oscillations used for the quantitative analysis presented in the paper.</li><li><b>Supplementary Code S4 (</b><i>S4_Code_Data_processing.ipynb</i><b>):</b> Python analysis code used for automated processing and for analyzing manually extracted data from the damped oscillations (S3).…"