Reusable and Reproducible Healthcare Simulations in Python and R

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42 repositories

des_rap_book
Public
Step-by-step guide for building Python and R simulation models as part of a reproducible analytical pipeline (RAP).
R
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MIT License
•0•0•14•0•Updated Jun 13, 2025Jun 13, 2025
.github
Public
GitHub profile
MIT License
•0•0•0•0•Updated Jun 13, 2025Jun 13, 2025
llm_simpy
Public
Research Compendium for exploring the ability of LLMs to generate SimPy models and streamlit interfaces.
Jupyter Notebook
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MIT License
•0•2•0•1•Updated Jun 13, 2025Jun 13, 2025
rap_template_r_des
Public template
A simple M/M/s queuing model implemented in R using simmer, structured as a reproducible analytical pipeline (RAP).
template r simulation reproducible-research reproducible-science healthcare simulation-framework simulation-modeling simulation-model reproducible-analytical-pipeline
R
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Other
•1•2•9•0•Updated Jun 11, 2025Jun 11, 2025
identify_bias
Public
Trying out tools for identifying bias
Python
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MIT License
•0•0•1•0•Updated Jun 10, 2025Jun 10, 2025
stars_wp4_presentation
Public
Presentation on WP4: implemented reproducible DES examples + online book guiding through their creation
SCSS
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Creative Commons Attribution 4.0 International
•0•0•2•0•Updated Jun 6, 2025Jun 6, 2025
rap_template_python_des
Public template
Template reproducible analytical pipeline (RAP) for simple python discrete-event simulation (DES) model.
python template simulation reproducible-research reproducible-science healthcare simulation-framework simulation-modeling simulation-model simpy
Jupyter Notebook
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MIT License
•0•3•6•0•Updated Jun 5, 2025Jun 5, 2025
stroke_rap_python
Public
Applying the Python DES RAP Template to the Stroke Capacity Planning Model from Monks et al. 2016
Jupyter Notebook
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MIT License
•0•0•4•0•Updated Jun 2, 2025Jun 2, 2025
intro-open-sim
Public
An introduction to building open Descrete-Event Simulation (DES) in Python
Jupyter Notebook
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MIT License
•1•6•0•0•Updated May 28, 2025May 28, 2025
scope_wsc_2025
Public
Data and analysis for a literature review of simulation for othopaedics services
HTML
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MIT License
•0•0•0•0•Updated Apr 22, 2025Apr 22, 2025
gw4_prize_presentation
Public
Amy Heather's presentation for the GW4 Open Research Prize 2024/25
HTML
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Creative Commons Attribution 4.0 International
•0•1•0•0•Updated Mar 28, 2025Mar 28, 2025
llm_simpy_models
Public
The SimPy models and apps generated by LLMs, deployed as a single app.
Python
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MIT License
•0•1•0•0•Updated Mar 25, 2025Mar 25, 2025
stars-ciw-example
Public
A treatment simulation model implemented in CiW
open-science healthcare reproducibility discrete-event-simulation model-reuse ciw shiny-python
Python
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GNU General Public License v3.0
•3•1•0•0•Updated Jan 22, 2025Jan 22, 2025
stars_wp1_summary
Public
Summary of the eight computational reproducibility assessments conducted as part of STARS Work Package 1. These assessed discrete-event simulation papers with models in Python and R.
TeX
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Creative Commons Attribution 4.0 International
•0•1•0•0•Updated Jan 22, 2025Jan 22, 2025
stars-reproduce-anagnostou-2022
Public
Assessing the computational reproducibility of Anagnostou et al. 2022 as part of STARS.
python simulation reproducible-research icu open-science reproducibility nhs intensive-care simpy discrete-event-simulation
Jupyter Notebook
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BSD 3-Clause "New" or "Revised" License
•0•0•0•0•Updated Jan 9, 2025Jan 9, 2025
stars-reproduce-shoaib-2022
Public
Assessing the computational reproducibility of Shoaib and Ramamohan 2022 as part of STARS.
python simulation reproducible-research open-science india reproducibility discrete-event-simulation quarto salabim
Jupyter Notebook
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MIT License
•0•0•0•0•Updated Jan 9, 2025Jan 9, 2025
stars-reproduce-wood-2021
Public
Assessing the computational reproducibility of Wood et al. 2021 as part of STARS.
r simulation reproducible-research open-science reproducibility nhs intensive-care triage discrete-event-simulation covid-19
TeX
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GNU General Public License v3.0
•0•1•0•0•Updated Jan 9, 2025Jan 9, 2025
stars-reproduce-johnson-2021
Public
Assessing the computational reproducibility of Johnson et al. 2021 as part of STARS.
r simulation reproducible-research open-science reproducibility discrete-event-simulation quarto copd
R
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GNU General Public License v3.0
•0•0•0•0•Updated Jan 9, 2025Jan 9, 2025
stars-reproduce-kim-2021
Public
Assessing the computational reproducibility of Kim et al. 2021 as part of STARS.
r simulation reproducible-research open-science screening reproducibility nhs discrete-event-simulation quarto aneurysm
R
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GNU Lesser General Public License v3.0
•0•2•0•0•Updated Jan 9, 2025Jan 9, 2025
stars-reproduce-lim-2020
Public
Assessing the computational reproducibility of Lim et al. 2020 as part of STARS.
python simulation reproducible-research numpy pandas open-science reproducibility discrete-event-simulation quarto covid-19
Jupyter Notebook
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MIT License
•0•0•0•0•Updated Jan 9, 2025Jan 9, 2025
stars-reproduce-huang-2019
Public
Assessing the computational reproducibility of Huang et al. 2019 as part of STARS.
r simulation reproducible-research open-science reproducibility discrete-event-simulation quarto simmer
TeX
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GNU General Public License v3.0
•0•0•0•0•Updated Jan 9, 2025Jan 9, 2025
stars-reproduce-hernandez-2015
Public
Assessing the computational reproducibility of Hernandez et al. 2015 as part of STARS.
python r simulation reproducible-research open-science reproducible-science discrete-event-simulation quarto
TeX
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MIT License
•0•0•0•0•Updated Jan 9, 2025Jan 9, 2025
stars_reproduction_protocol
Public
Syncs with Overleaf Latex protocol on simulation reproduction
protocol reproducibility preregistration
TeX
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Creative Commons Attribution 4.0 International
•0•0•0•0•Updated Jan 8, 2025Jan 8, 2025
stars-treat-simmer-quarto-wasm
Public
WASM deployed implementation of https://github.com/pythonhealthdatascience/stars-treat-simmer using Quarto Live
Lua
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MIT License
•0•0•0•0•Updated Dec 12, 2024Dec 12, 2024
rap_des
Public
Documentation supporting template reproducible analytical pipelines (RAP) for simple python and R discrete-event simulation (DES) models.
python template r simulation reproducible-research reproducible-science healthcare simulation-framework simulation-modeling simulation-model
MIT License
•0•0•0•0•Updated Dec 10, 2024Dec 10, 2024
stars-eom-rcc
Public
Modifications to the "Exeter Oncology Model: Renal Cell Carcinoma edition (EOM-RCC)" as part of STARS work package 3.
r reproducible-research open-science reproducible-science nice reproducibility oncology cost-effectiveness partitioned-survival-model health-technology-assessment
R
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MIT License
•5•3•0•0•Updated Nov 25, 2024Nov 25, 2024
stars-shiny-simmer
Public
WORK IN PROGRESS: An example R shiny interface to a simmer DES model.
JavaScript
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MIT License
•0•3•0•0•Updated Nov 19, 2024Nov 19, 2024
stress_update
Public
A review and update of the Strengthening the Reporting of Empirical Simulation Studies guidelines for DES, SD, and ABS.
Jupyter Notebook
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MIT License
•0•1•0•0•Updated Nov 1, 2024Nov 1, 2024
stars_wp3_summary
Public
Reflections from prospective and retrospective application of the STARS framework
TeX
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Creative Commons Attribution 4.0 International
•0•0•0•0•Updated Oct 22, 2024Oct 22, 2024
stars-streamlit-example
Public
STARS Project: deploying a python DES model using streamlit
reproducible-research open-science healthcare simpy discrete-event-simulation streamlit model-reuse
Python
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MIT License
•3•0•1•0•Updated Oct 15, 2024Oct 15, 2024