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Gut microbiota relative abundance data from Shao et al. 2019

Source: R/shao19.R
shao19.Rd

A phyloseq dataset containing 1644 gut microbiome samples. Fecal samples were collected from 596 infants. 175 mothers also provided fecal samples.

Usage

shao19

Format

large phyloseq object

Source

Stunted microbiota and opportunistic pathogen colonization in caesarean-section birth. doi:10.1038/s41586-019-1560-1

Data acquisition

The processed (metaphlan3) relative abundance data were obtained using curatedMetagenomicData package version 3.4.2. https://waldronlab.io/curatedMetagenomicData/articles/available-studies.html

A small amount of data cleaning was performed after download:

  1. to make sample metadata more user friendly

  2. to fill gaps in the taxonomy table.