Representative MSD plots, Fig. 6c,d by Hirotake Udono (21008660)

(a) System dynamics: schematic representation of all the reactions in the Tree model, which are aging, reproduction, color cycle, and competition. by Fabricio Cravo (21387854)

Simulated dynamics of the Mutual Annihilation protocol [26]. by Fabricio Cravo (21387854)

A comparison between the static Python-based visualizations of the p65 activity in activated fibroblasts and the dynamic, HTML-based visualizations that use these same reduction me... by Hector Torres (11708207)

“…<p><b>(a)</b> UMAP, t-SNE, PCA, and Diffmap were first generated using the Python libraries Scikit-learn, UMAP, and PyDiffmap within Jupyter to generate static graphs as a starting point. …”

PTPC-UHT bounce by David Parry (22169299)

“…</p><p dir="ltr">Included files:</p><ul><li>Python source code (<code>PTPC_UHT_bounce.py</code>)</li><li>Parameter sets for representative runs (α,β,Tcrit,V(T)\alpha, \beta, T_{\mathrm{crit}}, V(T)α,β,Tcrit​,V(T))</li><li>Output arrays of trajectories across multiple bounces</li><li>Multi-panel plots (PNG/PDF) for a(t)a(t)a(t), H(t)H(t)H(t), T(t)T(t)T(t), S(t)S(t)S(t), R(t)R(t)R(t), and ρT\rho_TρT​</li></ul><p dir="ltr">This dataset ensures full reproducibility of the PTPC simulations and provides a starting point for independent verification, parameter exploration, and future model extensions.…”

Comparative analysis of WordNet replacement impact on data distribution. by Enock Niyonkuru (21246879)

Data for "A hollow fiber membrane permeance evaluation device demonstrating outside-in and inside-out performance differences" by Timothy Warner (20222838)

“…</li><li>Flux decline data generated by the analysis software.</li><li>Plot data derived from the above data sources.</li><li>Python code to generate figures from the plot data.…”

Segmentation module training details. by Khelina Fedorchuk (19130089)

Fig 4. - mdciao: Accessible Analysis and Visualization of Molecular Dynamics Simulation Data by Guillermo Pérez-Hernández (21156182)

Examples of insights derived from iModulons. by Anand V. Sastry (6619310)

Introduction to the iModulonMiner using public <i>B</i>. <i>subtilis</i> RNA-seq data as a case study. by Anand V. Sastry (6619310)

Overview of the <i>B</i>. <i>subtilis</i> iModulon structure. by Anand V. Sastry (6619310)

Application to Drosophila gastrulation. by Sophie Theis (4126453)

Estimating dopamine effects on humans. by Domenico Guarino (20428000)

BlueRecording simulates hippocampal LFP. by Joseph James Tharayil (21416715)

Automatic classification of germline nuclei provides quantifications of meiotic progression. by Oane Gros (20636735)

Pseudo live-stream of EEG data is generated, and a simple pick-and-place flowchart is designed for channel selection and filtering. by Gursimran Singh (575288)

Plotting histograms depicting phylogenetic branch lengths (in amino acid substitutions per site) between homeologous gene pairs for 13 tetraploid genomes. by Amjad Khalaf (22470183)

“…<p>Python script used to extract pairwise branch lengths between homeologous gene pairs for 13 tetraploid genomes, and plot them as histograms. …”

High-throughput chemical genetics screen and titration of hit compounds vinblastine and vincristine. by Emiri Nakamura (21601773)

“…Scale bar = 100μm. (F) Fiji and Python scripts were used to process, analyze, and plot the high-content high-throughput confocal imaging data. …”

Digital Twin for Chemical Sciences by Jin Qian (19339035)

“…Lastly, we use the Figure 4.ipynb notebook in the 3_outputs folder to plot the subfigures in d), e), f). Observing that Basin Hopping performs better than Gaussian Process, we plot the degeneracy result with 0.1 error cutoff to obtain the subfigures in g), h), i). …”