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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 16 repositories
  • hypermut3 Public

    Find hypermutations or other patterns in nucleotide sequences

    MolEvolEpid/hypermut3’s past year of commit activity
    Python 0 0 0 0 Updated Oct 30, 2024
  • sweden-incidence Public

    Code from "Sweden surpasses the UNAIDS 95-95-95 Target: Estimating HIV-1 incidence between 2003-2022"

    MolEvolEpid/sweden-incidence’s past year of commit activity
    R 0 0 0 0 Updated Oct 17, 2024
  • SEEPS Public

    SEEPS: Sequence Evolution and Epidemiological Process Simulator

    MolEvolEpid/SEEPS’s past year of commit activity
    R 1 0 0 0 Updated Sep 30, 2024
  • MolEvolEpid.r-universe.dev Public

    Build and deployment toolchain for r-universe

    MolEvolEpid/MolEvolEpid.r-universe.dev’s past year of commit activity
    0 0 0 0 Updated Sep 25, 2024
  • ContactTracingForPhylogenies Public

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

    MolEvolEpid/ContactTracingForPhylogenies’s past year of commit activity
    Jupyter Notebook 1 0 0 0 Updated Sep 6, 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."

    MolEvolEpid/novel_hcv_subtypes’s past year of commit activity
    HTML 0 0 0 0 Updated May 20, 2024
  • SimReassort Public

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

    MolEvolEpid/SimReassort’s past year of commit activity
    R 2 0 0 0 Updated May 16, 2024
  • HIV_pipeline Public

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

    MolEvolEpid/HIV_pipeline’s past year of commit activity
    HTML 0 1 0 0 Updated May 10, 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

    MolEvolEpid/biophybreak’s past year of commit activity
    R 1 9 1 0 Updated Feb 24, 2024
  • 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"

    MolEvolEpid/coinfection_cotransmission_cofeeding_in_ticks’s past year of commit activity
    Mathematica 0 MIT 0 0 0 Updated Nov 13, 2023
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