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covid-campus-phylodynamics

Git Repo for the paper: On-Campus Dormitories as Viral Transmission Sinks: Phylodynamic Insights into Student Housing Networks During the COVID-19 Pandemic

https://github.com/jbolanos93/covid-campus-phylodynamics

Science Score: 67.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 2 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ○
    Academic email domains
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    Institutional organization owner
  • ○
    JOSS paper metadata
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    Scientific vocabulary similarity
    Low similarity (4.5%) to scientific vocabulary
Last synced: 10 months ago · JSON representation ·

Repository

Git Repo for the paper: On-Campus Dormitories as Viral Transmission Sinks: Phylodynamic Insights into Student Housing Networks During the COVID-19 Pandemic

Basic Info
  • Host: GitHub
  • Owner: jbolanos93
  • License: mit
  • Language: Jupyter Notebook
  • Default Branch: main
  • Size: 2.26 MB
Statistics
  • Stars: 0
  • Watchers: 1
  • Forks: 0
  • Open Issues: 0
  • Releases: 2
Created over 1 year ago · Last pushed over 1 year ago
Metadata Files
Readme License Citation

README.md

On-Campus Dormitories as Viral Transmission Sinks: Phylodynamic Insights into Student Housing Networks During the COVID-19 Pandemic

Overview

This repository contains the code and data for our study:
"On-Campus Dormitories as Viral Transmission Sinks: Phylodynamic Insights into Student Housing Networks During the COVID-19 Pandemic" (PLOS Pathogens, 2025).
Authors: Juan Bolanos, Alex Dornburg, April Harris, Samuel Kunkleman, Jannatul Ferdous Moon, William Taylor, Jessica Schlueter, Cynthia Gibas

Zenodo:
DOI

Repository Structure

  • notebooks/ - Jupyter notebooks for analysis. Walks through reproducing figures.
  • scripts/ - Python, Bash, and R scripts
  • data/ - Example dataset. This dataset contains BEAST MCC tree, with only 20 trees for faster processing.

Owner

  • Name: Juan Bolanos
  • Login: jbolanos93
  • Kind: user
  • Location: Charlotte, NC
  • Company: University of North Carolina at Charlotte

Bioinformatics PhD Student at UNCC

Citation (CITATION.cff) 

cff-version: 1.2.0
message: "If you use this software, please cite it as below."

authors:
  - family-names: Bolanos
    given-names: Juan
    orcid: "https://orcid.org/0009-0009-1857-2633"
  - family-names: Dornburg
    given-names: Alex
    orcid: "https://orcid.org/0000-0003-0863-2283"
  - family-names: Harris
    given-names: April
  - family-names: Kunkleman
    given-names: Samuel
  - family-names: Moon
    given-names: Jannatul Ferdous
  - family-names: Taylor
    given-names: William
  - family-names: Schlueter
    given-names: Jessica
    orcid: "https://orcid.org/0000-0002-6490-0580"
  - family-names: Gibas
    given-names: Cynthia
    orcid: "https://orcid.org/0000-0002-1288-9543"

title: "On-Campus Dormitories as Viral Transmission Sinks: Phylodynamic Insights into Student Housing Networks During the COVID-19 Pandemic"
version: "2.0.1"
date-released: "2025-02-27"

GitHub Events

Total
  • Release event: 5
  • Public event: 1
  • Push event: 26
  • Create event: 4
Last Year
  • Release event: 5
  • Public event: 1
  • Push event: 26
  • Create event: 4

Dependencies

requirements.txt pypi