Functional distribution per replicon type represented by COG percentage. by Andrés Cumsille (9575528)

Complex Eigenvalues, Orthogonality, and QR Factorization: Analytical Proofs and Numerical Verification by Umar Tabbsum (22058780)

“…The work includes both analytical proofs and numerical verification to ensure reproducibility and clarity.…”

SparcleQC: Automated Input File Creation for QM/MM Studies of Protein:Ligand Complexes by Caroline S. Glick (21561990)

“…The resulting input files include quantum mechanical representations of the ligand and a small section of the protein, surrounded by point charges that represent the rest of the protein. …”

Additional file 3 of GenGraph: a python module for the simple generation and manipulation of genome graphs by Jon Ambler (7549571)

Log file of PDBrenum on PDB entry 2aa3. by Bulat Faezov (11084351)

The Python Software Quality Dataset by Liviu Marian Berciu (17797934)

“…<p dir="ltr">This content represents the dataset of the article "The Python Software Quality Dataset". …”

<i>Paraburkholderia terrae</i> KU-15 visualization and analysis by GenoVi allows its replicon classification. by Andrés Cumsille (9575528)

Application of GenoVi using a draft or complete bacterial genome. by Andrés Cumsille (9575528)

High density of Translation, ribosomal structure and biogenesis (J) orthologs is located in the region 400–500 kb of <i>Sulfolobus acidocaldarius</i> DG1 genome. by Andrés Cumsille (9575528)

Shorthand representations of a cloning strategy. by Nassim Ataii (17382733)

Polynucleotide object representation for simulating molecular biology operations. by Nassim Ataii (17382733)

Visualization of full-length sequencing data. by Yiming Zhang (444592)

Decoding single-cell multiomics data. by Yiming Zhang (444592)

Multi-Version PYZ Builder Script: A Universal Python Module Creation Tool by Pavel Izosimov (20096259)

“…</li><li><b>Python App Bundle Shield</b>: Enables the creation of standalone protected applications and executable files from Python scripts. …”

The steps of Recombulator-X are represented on the left column of the figure, while we reported a simplified example on the right using just three X-STRs. by Serena Aneli (17002149)

Recommended structure of a standard MCell4 model. by Adam Husar (18437351)

“…However, use of this structure promotes readability, modularity, navigation, and sharing of models with others. The MCell4 Python code generator in CellBlender follows this recommended structure with the addition of a file called customization.py whose purpose is to provide a means to modify/expand the model in the case when the standard files are automatically generated from the CellBlender representation.…”

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

“…</p><p dir="ltr"><br></p><p dir="ltr">## Files in the Project</p><p dir="ltr"><br></p><p dir="ltr">### Python Scripts</p><p dir="ltr">- **Wildfire_on_m_n-CAk.py**: This file contains the main code for the fire cellular automaton. …”

Resolving Harvesting Errors in Institutional Repository Migration : Using Python Scripts with VS Code and LLM Integration. by satoshi hashimoto(橋本 郷史) (18851272)

“…</li><li>Initially, the error report files were loaded into VS Code.</li><li>Next, we provided GitHub Copilot with contextual information, file details, and analysis objectives as initial instructions to generate the Python code.…”

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

Example model using BNGL. by Adam Husar (18437351)