GitHub - zhiru-liu/microbiome_evolution: Scripts for analyzing evolutionary dynamics in large cohorts of human gut metagenomes

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Scripts for analyzing evolutionary dynamics in large cohorts of human gut metagenomes

MIT license

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Name		Name	Last commit message	Last commit date
Latest commit History 515 Commits
GarudGood2019_scripts		GarudGood2019_scripts
bash_scripts		bash_scripts
cphmm		cphmm
metadata		metadata
parsers		parsers
plotting_for_publication		plotting_for_publication
scripts		scripts
utils		utils
LICENSE		LICENSE
README		README
config.py		config.py
requirements.txt		requirements.txt

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This project provides associated computer code for the manuscript:

Liu Z, Good BH. Dynamics of bacterial recombination in the human gut microbiome.
PLoS Biol. 2024 Feb 8;22(2):e3002472. doi: 10.1371/journal.pbio.3002472. PMID: 38329938; PMCID: PMC10852326.

https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.3002472

More documentation to come! Please to email me (zhiru at stanford.edu) in the mean time for any quetions.