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https://github.com/silask/funmetagenomics

Genome-resolved functional metagenomics for human and mice
https://github.com/silask/funmetagenomics

Last synced: about 1 month ago
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Genome-resolved functional metagenomics for human and mice

Host: GitHub
URL: https://github.com/silask/funmetagenomics
Owner: SilasK
Created: 2021-08-03T12:49:43.000Z (over 3 years ago)
Default Branch: main
Last Pushed: 2021-08-03T12:51:26.000Z (over 3 years ago)
Last Synced: 2024-11-02T15:02:49.799Z (about 2 months ago)
Size: 0 Bytes
Stars: 0
Watchers: 2
Forks: 0
Open Issues: 0
Metadata Files:
- Readme: README.md

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README

        # Comprehensive Mouse Gut Metagenome (CMGM) catalog

> Comprehensive mouse gut metagenome catalog reveals major difference to the human counterpart. Kieser, S., Zdobnov, E. M. & Trajkovski, M. bioRxiv 2021.03.18.435958 (2021). doi:[10.1101/2021.03.18.435958](https://doi.org/10.1101/2021.03.18.435958)

Here is a [jupyter notebook](notebooks/Analyze-cold-adapted-microbiota.ipynb) that shows how CMGM can be used for the analysis of mouse metagenome data.

![Volcanoplot](Figures/Volcanoplot.svg) ![barplot](Figures/barplot_Butyrate.svg)

The same code can be used for the analysis of human metagenome data, by using our [functionally annotions](https://ezmeta.unige.ch/CMGM/v1/Human_data/) of the Unified human gastrointestinal genome collection.