R package for phylodynamics
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Updated
Sep 5, 2026 - HTML
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molecular-epidemiology
Here are 6 public repositories matching this topic...
1st PhD scientific research: The machine learning development on how i associated highly collerated large scaled molecular data with numerous traits
machine-learning exploratory-data-analysis biostatistics public-health regularization epidemiology molecular-epidemiology
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Nov 9, 2025 - R
Phylodynamics of a wildlife-maintained canine distemper virus lineage in North American carnivores. Reproducible pipeline from GenBank to BEAST.
bioinformatics phylogenetics phylodynamics beast2 molecular-epidemiology wildlife-diseases canine-distemper-virus
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Aug 30, 2026 - Jupyter Notebook
Code of the article that describes the molecular epidemiology analyses of OsHV-1 virus by whole genome sequencing approaches in French shellfish growing areas.
bioinformatics r genome analysis metagenomics bioinformatics-pipeline academic-project shell-scripts academic-paper virology ngs-analysis phylogenetic-analysis genomes-comparison molecular-epidemiology virus-genomes
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Feb 18, 2022 - Shell
Analysis pipeline and manuscript materials comparing influenza antigenic distance metrics with phylogenetic tree distances
bioinformatics r biostatistics rstats epidemiology influenza vaccines neighbor-joining h1n1 sequence-analysis targets hai quarto molecular-epidemiology antigenic-cartography antigenic-distance h3n2 targets-r
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Jun 5, 2026 - R
R package for entropy-informed detection of emerging viral variants and genomic surveillance. Implements per-site Shannon entropy, Gaussian mixture model site selection, Hellinger distance, and non-parametric change-point detection. Validated on SARS-CoV-2 Spike protein sequences from NCBI and GISAID databases.
bioinformatics clustering computational-biology gaussian-mixture-models fasta r-package functional-data-analysis ncbi viral-genomics shannon-entropy change-point-detection viral-evolution variant-detection covid-19 sars-cov-2 gisaid molecular-epidemiology genomic-surveillance hellinger-distance spike-protein
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May 31, 2026 - R
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