PathoStat (development version) (original) (raw)

This is the development version of PathoStat; for the stable release version, seePathoStat.

PathoStat Statistical Microbiome Analysis Package

Bioconductor version: Development (3.22)

The purpose of this package is to perform Statistical Microbiome Analysis on metagenomics results from sequencing data samples. In particular, it supports analyses on the PathoScope generated report files. PathoStat provides various functionalities including Relative Abundance charts, Diversity estimates and plots, tests of Differential Abundance, Time Series visualization, and Core OTU analysis.

Author: Solaiappan Manimaran <manimaran_1975 at hotmail.com>, Matthew Bendall , Sandro Valenzuela Diaz , Eduardo Castro , Tyler Faits , Yue Zhao , Anthony Nicholas Federico , W. Evan Johnson

Maintainer: Solaiappan Manimaran <manimaran_1975 at hotmail.com>, Yue Zhao

Citation (from within R, enter citation("PathoStat")):

Installation

To install this package, start R (version "4.5") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("PathoStat")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("PathoStat")

Details

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Package Archives

Follow Installation instructions to use this package in your R session.