PAPi

DOI: 10.18129/B9.bioc.PAPi    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see PAPi.

Predict metabolic pathway activity based on metabolomics data

Bioconductor version: 3.9

The Pathway Activity Profiling - PAPi - is an R package for predicting the activity of metabolic pathways based solely on a metabolomics data set containing a list of metabolites identified and their respective abundances in different biological samples. PAPi generates hypothesis that improves the final biological interpretation. See Aggio, R.B.M; Ruggiero, K. and Villas-Boas, S.G. (2010) - Pathway Activity Profiling (PAPi): from metabolite profile to metabolic pathway activity. Bioinformatics.

Author: Raphael Aggio

Maintainer: Raphael Aggio <raphael.aggio at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("PAPi")

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("PAPi")

 

PDF	R Script	Applying PAPi
PDF		PAPi.pdf
PDF		Reference Manual

Details

biocViews	ImmunoOncology, MassSpectrometry, Metabolomics, Software
Version	1.24.0
In Bioconductor since	BioC 2.12 (R-3.0) (6.5 years)
License	GPL(>= 2)
Depends	R (>= 2.15.2), svDialogs, KEGGREST
Imports
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Build Report

Package Archives

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

Source Package	PAPi_1.24.0.tar.gz
Windows Binary	PAPi_1.24.0.zip
Mac OS X 10.11 (El Capitan)	PAPi_1.24.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/PAPi
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/PAPi
Package Short Url	https://bioconductor.org/packages/PAPi/
Package Downloads Report	Download Stats