Skip to content
@MAGPIE-SFU

MAGPIE

Mathematics, Genomics and Prediction in Infection and Evolution
README.md

Hello. Welcome to the SFU MAGPIE Group!

This github contains repositories developed by people in the MAthematics, Genomics and Prediction in Infection and Evolution (MAGPIE) research group at Simon Fraser University in Vancouver (well, Burnaby), Canada.

The MAGPIE group studies the dynamics of diverse interacting pathogens. We are building tools to use pathogen genomic data to help us understand transmission patterns. We develop novel approaches to analyze and compare phylogenetic trees. We develop and test ecological and epidemiological models. Our website is https://www.sfu.ca/magpie.html.

Recent work includes a method for sampling-aware ancestral state inference (SAASI; https://www.nature.com/articles/s41467-026-72851-5 with R package at https://github.com/MAGPIE-SFU/saasi) and Bayesian Reconstruction and Evolutionary Analysis of Transmission Histories (BREATH; https://github.com/rbouckaert/BREATH).

Please visit our website for more information.

Popular repositories Loading

  1. saasi saasi Public

    R 2 6

  2. tb-malawi-phylogeo-public tb-malawi-phylogeo-public Public

    A publicly available version of the analysis in the manuscript "Genomic epidemiology of Mycobacterium tuberculosis in Malawi: using global phylogeography to understand the impact of geographically-…

    R 2

  3. Rt-cases-seqs Rt-cases-seqs Public

    Rt from sequences vs case counts: simulation-based comparisons

    R 1

  4. tree-metrics tree-metrics Public

    R

  5. .github .github Public

  6. echo echo Public

    R package for ECHO, estimating missing case counts from timed phylogenetic trees

    R

Repositories

Showing 7 of 7 repositories

People

This organization has no public members. You must be a member to see who’s a part of this organization.

Top languages

Loading…

Most used topics

Loading…