Repositories list

• Galleria_Survival

  Public
  Analysis for the experiments with Galleria-Pseudomonas model system.

  R

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Sep 15, 2026Sep 15, 2026

• PA_VF_Evolution

  Public
  Bob's DnDs project

  Python

  •22 forks•00 stars•00 issues•00 pull requests•Updated Aug 19, 2026Aug 19, 2026

• GoldsteinGameTheory

  Public
  Reannimation of Goldstein model/simulations.

  R

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jun 23, 2026Jun 23, 2026

• Mutant-Calling

  Public
  R

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 8, 2026Jun 8, 2026

• microdilutionMIC

  Public
  Calculates minimum inhibitory concentrations from microdilution data.

  R

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated May 8, 2026May 8, 2026

• abx-inoculum-effects

  Public
  Code for "Quantifying antibiotic susceptibility and inoculum effects using transient dynamics of Pseudomonas aeruginosa"

  MATLAB

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 5, 2026Mar 5, 2026

• hierarchy

  Public
  Quantitative modeling of multi-signal quorum sensing maps environment to bacterial regulatory responses

  MATLAB

  •00 forks•22 stars•00 issues•00 pull requests•Updated Sep 7, 2025Sep 7, 2025

• PyocinTyper

  Public
  Type pyocins of Pseudomonas aeruginosa.

  Nextflow

  •11 fork•00 stars•00 issues•00 pull requests•Updated Aug 12, 2025Aug 12, 2025

• metaAnalysis

  Public
  R

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Mar 28, 2025Mar 28, 2025

• phage-community-dynamics

  Public
  MATLAB

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 6, 2024Feb 6, 2024

• Rattray-2023-PLOSCompBio

  Public
  Downsampled raw colony images

  Jupyter Notebook

  •11 fork•22 stars•00 issues•00 pull requests•Updated Oct 17, 2023Oct 17, 2023

• Freq_of_Pa_QS_mutations_2021

  Public
  Code for O'Connor et al., 2022: https://www.biorxiv.org/content/biorxiv/early/2022/07/27/2021.02.22.432365.full.pdf

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 13, 2022Dec 13, 2022

• commensal_resistance

  Public
  MATLAB

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 30, 2022Sep 30, 2022

• Rattray-2022

  Public
  Analysis supplement for Rattray et al., 2022

  00 forks•00 stars•00 issues•00 pull requests•Updated Apr 26, 2022Apr 26, 2022

• Varga-et-al_CompetitiveAbxRelease_SRA-upload

  Public
  Processing pipeline for SRA upload from raw data

  R

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 4, 2021Aug 4, 2021

• qsmodels

  Public archive
  Mathematical Models of Quorum Sensing

  matlabmathematicadifferential-equations+ 2

  matlabmathematicadifferential-equationsmathematical-modellingmathematical-biology

  Mathematica

  •00 forks•11 star•00 issues•00 pull requests•Updated Feb 10, 2020Feb 10, 2020

• pa_genomics

  Public
  R

  •11 fork•11 star•00 issues•00 pull requests•Updated Dec 18, 2019Dec 18, 2019

• sbalance

  Public
  Structural Balance in Polymicrobial Networks

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Apr 9, 2018Apr 9, 2018

• Worm_Tracking

  Public
  A pipeline to analyze microscope images of C. elegans

  00 forks•11 star•00 issues•00 pull requests•Updated Mar 7, 2018Mar 7, 2018