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@MolEvolEpid

LANL Molecular Evolution & Epidemiology Team

Public health-related work done in the Theoretical Biology & Biophysics Group at Los Alamos National Laboratory

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  1. General_Info General_Info Public

    Information about this collection of work.

Repositories

Showing 10 of 13 repositories
  • SimReassort Public

    Code from Lin et al., "The number and pattern of viral genomic reassortments are not necessarily identifiable from segment trees", 2024; msae078.

    R 0 0 0 0 Updated Apr 26, 2024
  • SEEPS Public

    SEEPS: Sequence Evolution and Epidemiological Process Simulator

    R 1 0 1 0 Updated Apr 25, 2024
  • HIV_pipeline Public

    End-to-End computational pipeline for nationwide HIV outbreak monitoring.

    Python 0 1 0 0 Updated Apr 24, 2024
  • novel_hcv_subtypes Public

    Code and data from Mbisa et al. "Identification of two novel subtypes of hepatitis C virus genotype 8 and a potential new genotype in the UK successfully treated with direct acting antivirals."

    HTML 0 0 0 0 Updated Apr 24, 2024
  • biophybreak Public Forked from donkeyshot/phybreak

    Code from Lundgren et al "Combining biomarker and virus phylogenetic models improves epidemiological source identification" in PLOS Computational Biology 2022 Aug 26;18(8):e1009741

    R 1 8 0 0 Updated Feb 24, 2024
  • ContactTracingForPhylogenies Public

    Code from Kupperman et al_ "Predicting Impacts of Contact Tracing on Epidemiological Inference from Phylogenetic Data" (2023).

    Jupyter Notebook 1 0 0 0 Updated Dec 5, 2023
  • coinfection_cotransmission_cofeeding_in_ticks Public

    Code from Belluccini et al. "A story of viral co-infection, co-transmission and co-feeding in ticks: how to compute an invasion reproduction number"

    Mathematica 0 MIT 0 0 0 Updated Nov 13, 2023
  • timeslice Public

    Time-slice Markov model for phylogenetic inference of transmission time

    Python 0 1 0 0 Updated Jun 27, 2023
  • MachineLearningModelforHIVOutbreaks Public

    Code from Kupperman et al "A deep learning approach to real-time HIV outbreak detection using genetic data" in PLOS Comp Biol 2022 18(10):e1010598

    PureBasic 3 1 0 0 Updated Nov 28, 2022
  • General_Info Public

    Information about this collection of work.

    0 0 0 0 Updated Aug 9, 2022
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