Dietary

A diet-microbiome data with shotgun metagenomic sequencing results of fecal samples and daily dietary records of 34 subjects in 17 consecutive days.
See original data from article "Daily Sampling Reveals Personalized Diet-Microbiome Associations in Humans" (Johnson et al. 2019).

datasets

We provide a flexible Zero-inflated Poisson-Gamma Model (ZIPG) by connecting both the mean abundance and the variability to different covariates, and build valid statistical inference procedures for both parameter estimation and hypothesis testing. These functions can be used to analyze microbiome count data with zero-inflation and overdispersion. The model is discussed in Jiang et al (2023) <doi:10.1080/01621459.2022.2151447>.

Roulan Jiang

ZIPG

Zero-Inflated Poisson-Gamma Regression

Tianying Wang

Dietary function

A list with OTU table and other covariates<dl>
 <dt>OTU</dt>
<dd>OTU table</dd> <dt>COV</dt>
<dd>Major covariates extracted from original data</dd> <dt>M</dt>
<dd>Sequencing depth</dd>
</dl>

Format

A diet-microbiome data — Dietary

A list with OTU table and other covariates<dl>
 <dt>OTU</dt>
<dd>OTU table</dd>

 <dt>COV</dt>
<dd>Major covariates extracted from original data</dd>

 <dt>M</dt>
<dd>Sequencing depth</dd>


</dl>

Dietary: A diet-microbiome data

Description

Usage

Arguments

Format