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abc

Code accompanying the publication "Enhancing Bacterial Adhesion with Hydro-Softened Chitosan Films"

https://github.com/hseo47/abc

Science Score: 57.0%

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    Found CITATION.cff file
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    Found codemeta.json file
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    Found .zenodo.json file
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    Found 2 DOI reference(s) in README
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    Low similarity (8.2%) to scientific vocabulary
Last synced: 6 months ago · JSON representation ·

Repository

Code accompanying the publication "Enhancing Bacterial Adhesion with Hydro-Softened Chitosan Films"

Basic Info
  • Host: GitHub
  • Owner: hseo47
  • License: mit
  • Language: MATLAB
  • Default Branch: main
  • Homepage:
  • Size: 9.18 MB
Statistics
  • Stars: 1
  • Watchers: 1
  • Forks: 0
  • Open Issues: 0
  • Releases: 2
Created 11 months ago · Last pushed 9 months ago
Metadata Files
Readme License Citation

README.md

ABC-Adhesion-of-Bacteria-to-Chitosan

This repository contains MATLAB code and Scanned Electron Microscopy (SEM) image files used in the study:
Enhancing Bacterial Adhesion with Hydro-Softened Chitosan Film
The code simulates bacterial adhesion using a kinetic Monte Carlo framework

Contents

  • 'kMCsimulation.m' – Runs the stochastic kMC simulation loop (JKR-Griffith adhesion threshold, xDLVO)
  • 'morphImgPro.m' – Runs the morphological classification of SEM images post-incubation
  • 'Data.rtf' – Morphological classification outputs
  • 'Simulatd Data.rtf' - Simulation outputs (Bacteria Count) over 24 hr run
  • Simulated binary grid (kMC) and SEM images

Requirements

  • MATLAB R2023 or later (Preferably)
  • Image Processing Toolbox

Tested with MATLAB_R2024b; No additional external libraries are needed

Usage

  • Run MATLAB
  • Run kMCsimulation.m (Adjust parameters if necessary)
  • Run morImgPro.m (Change input file name)

Code Availability Statement

In compliance with institutional data management policies, the full codebase is maintained on Georgia Tech’s GitHub Enterprise instance. A stable public version, sufficient for reproducing the results reported in this manuscript, is available at https://github.com/hseo47/ABC and has been archived with a permanent DOI at https://doi.org/10.5281/zenodo.15323528. This public version includes usage instructions, example datasets, and all necessary dependencies for replication.

Owner

  • Name: Hojin Seo
  • Login: hseo47
  • Kind: user
  • Location: Atlanta, GA

soft matter @ georgia tech

Citation (CITATION.cff) 

cff-version: 1.1.0
message: "If you use this code, please cite the following:"
title: "ABC-Adhesion-of-Bacteria-to-Chitosan"
version: 1.1
doi: 10.5281/zenodo.15323528
date-released: 2025-05-02
authors:
  - family-names: Seo
    given-names: Hojin
    affiliation: Georgia Institute of Technology
  - family-names: Yu
    given-names: Xiaoqing
    affiliation: Georgia Institute of Technology
  - family-names: Tripathi
    given-names: Anuja
    affiliation: Georgia Institute of Technology
  - family-names: Higdon
    given-names: Emily
    affiliation: Georgia Institute of Technology
  - family-names: Dulla
    given-names: Yash
    affiliation: Georgia Institute of Technology
  - family-names: LeClair
    given-names: Simon
    affiliation: Georgia Institute of Technology
  - family-names: Champion
    given-names: Julie
    affiliation: Georgia Institute of Technology
  - family-names: Harris
    given-names: Tequila A. L.
    affiliation: Georgia Institute of Technology

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