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Analysis of metatranscriptome data from human microbiomes using phyloseq and deseq2

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Author: Shawn Higdon

Date: February 14, 2019

This repository contains R code and output from analysis of human metatranscriptome data related to investigations of the human microbiome in relation to Type 2 Diabetes.

Analysis includes:

  • Using Phyloseq to analyze output from Bracken2

  • Using DEseq2 to evaluate differential abundance of taxa across samples.

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Analysis of metatranscriptome data from human microbiomes using phyloseq and deseq2

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