Social media images of China's terraces by Song Chen (19488280)

“…</p><p dir="ltr">These images can be used for training classification models. All code used for model training and testing is available at: https://github.com/chen7092/Deep-learning-for-cultural-ecosystem-services-of-terraces.…”

Genomic Surveillance of Pemivibart (VYD2311) Escape-Associated Mutations in SARS-CoV-2: December 2025 BioSamples (n=2) by Tahir Bhatti (20961974)

“…The pipeline integrates established open-source tools (fastp, BWA-MEM, samtools, iVar, bcftools) and implements <b>codon-aware mutation calling</b> at five canonical RBD positions (R346, S371, K444, F456, F486) relative to NC_045512.2. …”

<b>Rethinking neighbourhood boundaries for urban planning: A data-driven framework for perception-based delineation</b> by Shubham Pawar (22471285)

“…</p><p dir="ltr"><b>Input:</b></p><ul><li><code>svi_module/svi_data/svi_info.csv</code> - Image metadata from Step 1</li><li><code>perception_module/trained_models/</code> - Pre-trained models</li></ul><p dir="ltr"><b>Command:</b></p><pre><pre>python -m perception_module.pred \<br> --model-weights .…”

Building footprtints from 1970s Hexagon spy satellite images for four global urban growth hotspots by Franz Schug (10165159)

“…The data represent the final results, that means, after merging models with different chip sizes and post-processing (see manuscript). …”

Sonification of Growing Black Hole by Rose Shepherd (20328444)

“…We used the open source Python package STRAUSS to produce the sonification (Trayford and Harrison 2023). …”

Digital Twin for Chemical Sciences by Jin Qian (19339035)

“…The procedure for generating data in Figure 3 can be found in the demo notebook in Supplementary Code. The procedure for generating data of Figure 4 has been uploaded in fig4_figshare.zip file. …”

Attention and Cognitive Workload by 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.…”

Bacterial persistence modulates the speed, magnitude and onset of antibiotic resistance evolution by Giorgio Boccarella (22810952)

“…</p><p dir="ltr">Repository structure</p><p dir="ltr">Fig_1/</p><ul><li>Probability of emergence analysis</li><li>Fig_1.py: contour plot generation</li></ul><p dir="ltr">Fig_2/</p><ul><li>MIC evolution simulations</li><li>Fig_2_a/: R-based simulation analysis</li><li>Fig_2_b/: Python visualization</li><li>Fig_2_c/: speed of resistance evolution analysis</li><li>Fig_2_d/: time to resistance analysis</li></ul><p dir="ltr">Fig_3/</p><ul><li>Distribution analysis</li><li>Fig_3_a-b.R: density plots and bar charts (empirical and simulated)</li></ul><p dir="ltr">Fig_4/</p><ul><li>Mutation analysis</li><li>Fig_4_a-b/: mutation counting analysis</li><li><ul><li>Fig_4_a/: simulation data (sim)</li><li>Fig_4_b/: empirical data (emp)</li></ul></li><li>Fig_4_c/: gene ontology and functional analysis</li></ul><p dir="ltr">Fig_5/</p><ul><li>Large-scale evolutionary simulations</li><li>Fig_5_a-b/: heatmap visualizations</li><li>Fig_5_c/: MIC and extinction analysis (empirical)</li></ul><p dir="ltr">Fig_6/</p><ul><li>Population size effects</li><li>Fig_6.py: population size analysis simulations</li></ul><p dir="ltr">S1_figure/</p><ul><li>Supplementary experimental data</li></ul><p dir="ltr">S2_figure/</p><ul><li>Supplementary frequency analysis</li></ul><p dir="ltr">S3_figure/</p><ul><li>Supplementary probability analysis</li></ul><p dir="ltr">scripts_simulations_cluster/</p><ul><li>Large-scale, cluster-optimized simulations</li></ul><p dir="ltr">complete_data/</p><ul><li>Reference to the full data sheet (full data set deposited elsewhere)</li></ul><p dir="ltr">Script types and languages</p><p dir="ltr">Python scripts (.py)</p><ul><li>Mathematical modeling: survival functions, probability calculations</li><li>Stochastic simulations: tau-leaping population dynamics</li><li>Data processing: mutation analysis, frequency calculations</li><li>Visualization: plotting with matplotlib and seaborn</li><li>Typical dependencies: numpy, pandas, matplotlib, seaborn, scipy</li></ul><p dir="ltr">R scripts (.R)</p><ul><li>Statistical analysis: distribution fitting, density plots</li><li>Advanced visualization: publication-quality figures (ggplot2)</li><li>Data manipulation: dplyr / tidyr workflows</li><li>Typical dependencies: dplyr, tidyr, ggplot2, readxl, cowplot</li></ul><p dir="ltr">Data requirements</p><p dir="ltr">The scripts are designed to run using the complete_data.xlsx file and, where relevant, the raw simulation outputs and empirical data sets as described above. …”

Improving the calibration of an integrated CA-What If? digital planning framework by CA What If? (21381170)

“…</p><p dir="ltr">This dataset includes (1) all required data for reproducing the materials within the manuscript, (2) detailed Python codes of the proposed CA-What If? model, and (3) a step-by-step instruction document.…”

Sonification of Warming Stripes by Christopher Harrison (9448751)

“…The sonification was produced using the STRAUSS sonification Python package.</p><p dir="ltr">Here we release:<br>1. …”

Genomic Epidemiology of SARS-CoV-2 in Peru from 2020 to 2024 by Pablo Tsukayama (22614461)

“…</p><p dir="ltr"><b>Contents:</b></p><p><b>1. Analysis Code</b></p><p>Core Python scripts used to curate metadata, process genomic data, perform lineage assignments, compute summary statistics, and prepare inputs for downstream phylogenetic and phylogeographic analyses. …”

Missing and Unaccounted-for People in Mexico (1960s–2025) by Montserrat Mora (20430644)

“…</li><li><b>Requirements File:</b> A <code>requirements.txt</code> file listing the necessary Python libraries to run the script seamlessly.…”

2024 HUD Point in Time Count Data by State and CoC with Serious Mental Illness and Chronic Substance Use Counts by Benjamin Gorman (21648794)

“…</p><p dir="ltr">HUD PIT Count reports for states, Washington, DC, and the 384 CoCs were systematically downloaded from the HUD Exchange website using a Python script developed using Cursor software. Cursor uses large language models, especially Claude Sonnet 4 (Anthropic), to generate code. …”

Thermally Activated Resonant Tunnelling in GaAs/AlGaAs Triple Barrier Heterostructures by Craig Allford (19079081)

“…Measurements were automated using bespoke written python code.<br><br>Results are published in the article at http://iopscience.iop.org/0268-1242/30/10/105035 <br>…”

Folder with all data and algorithms by Jorge Servert Lerdo de Tejada (22290001)

“…<p dir="ltr">Spatially Offset Raman Spectroscopy (SORS) has emerged as a potential tool for non-invasive biomedical diagnostics, enabling molecularly specific probing of subsurface tissues. …”

The artifacts and data for the paper "DD4AV: Detecting Atomicity Violations in Interrupt-Driven Programs with Guided Concolic Execution and Filtering" (OOPSLA 2025) by zixuan yuan (17602152)

“…</p><pre><pre>sudo apt-get install -y wget git build-essential python3 python python-pip python3-pip tmux cmake libtool libtool-bin automake autoconf autotools-dev m4 autopoint libboost-dev help2man gnulib bison flex texinfo zlib1g-dev libexpat1-dev libfreetype6 libfreetype6-dev libbz2-dev liblzo2-dev libtinfo-dev libssl-dev pkg-config libswscale-dev libarchive-dev liblzma-dev liblz4-dev doxygen libncurses5 vim intltool gcc-multilib sudo --fix-missing<br></pre></pre><pre><pre>pip install numpy && pip3 install numpy && pip3 install sysv_ipc<br></pre></pre><h4><b>Download the Code</b></h4><p dir="ltr">Download <b>DD4AV</b> from the Figshare website to your local machine and navigate to the project directory:</p><pre><pre>cd DD4AV<br></pre></pre><h4><b>Configure Environment and Install the Tool</b></h4><p dir="ltr">For convenience, we provide shell scripts to automate the installation process. …”

CpG Signature Profiling and Heatmap Visualization of SARS-CoV Genomes: Tracing the Genomic Divergence From SARS-CoV (2003) to SARS-CoV-2 (2019) by Tahir Bhatti (20961974)

“…</p><p dir="ltr">Heatmap Images :</p><p dir="ltr">Heatmaps for CpG counts and O/E ratios comparing Wuhan-Hu-1 with its closest and most distant relatives.</p><p dir="ltr">Python Script :</p><p dir="ltr">Full Python code used for data processing, distance calculation, and heatmap generation.…”

Cognitive Fatigue by Rui Varandas (11900993)

“…<br></p><p dir="ltr"><b>HCI features</b> encompass keyboard, mouse, and screenshot data. Below is a Python code snippet for extracting screenshot files from the screenshots CSV file.…”

Supplementary Material for: The prediction of hematoma growth in acute intracerebral hemorrhage: from 2-dimensional shape to 3-dimensional morphology by figshare admin karger (2628495)

“…We subsequently constructed the 3-dimensional morphology models, including the probability of hematoma morphology (PHM) and the probability of comprehensive model (PCM), to predict HG. …”

Physiotherapist-Assisted Wrist Movement Protocol for EEG-Based Corticokinematic Coherence Assessment by Fanni Kovács (21733838)

“…</li></ol><h4><b>Movement File Structure</b></h4><p dir="ltr">Each entry contains:</p><ul><li><code><strong>time</strong></code>: a 32-bit unsigned integer indicating the timestamp in milliseconds,</li><li><code><strong>x</strong></code>, <code><strong>y</strong></code>, <code><strong>z</strong></code>: 16-bit signed integers representing acceleration along the respective axes,</li><li><code><strong>trigger</strong></code>: an 8-bit unsigned integer used to mark event-related triggers for synchronization with the EEG data (e.g., movement onset).…”