metabolomicsData


metabolomicsData is an example of a typical metabolomics data set, where it has a list of identified metabolites in the first column and their respective abundances in the different samples in the following columns. The first row of metabolomicsData, Replicates, defines to which experimental condition each sample belongs.


datasets

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.

Raphael Aggio

PAPi

Predict metabolic pathway activity based on metabolomics data

metabolomicsData function

A data frame containing the names of identified metabolites in the first column and their respective abundances in the different samples in the following columns.
  <dl>
    <dt><code>Names</code></dt><dd>list of identified metabolites</dd> <dt><code>Sample1</code></dt><dd>the abundance of each metabolite in Sample 1</dd> <dt><code>Sample2</code></dt><dd>the abundance of each metabolite in Sample 2</dd> <dt><code>Sample3</code></dt><dd>the abundance of each metabolite in Sample 3</dd> <dt><code>Sample4</code></dt><dd>the abundance of each metabolite in Sample 4</dd> <dt><code>Sample5</code></dt><dd>the abundance of each metabolite in Sample 5</dd> <dt><code>Sample6</code></dt><dd>the abundance of each metabolite in Sample 6</dd> </dl> 

Format

metabolomicsData is an example of a typical metabolomics data set, where it has a list of identified metabolites in the first column and their respective abundances in the different samples in the following columns. The first row of metabolomicsData, Replicates, defines to which experimental condition each sample belongs.

An example of metabolomics data set used by <code><a href="addKeggCodes" rd-options="">addKeggCodes</a></code>.


An example of metabolomics data set used by <code><a rd-options="" href="/link/addKeggCodes?package=PAPi&version=1.12.0" data-mini-rdoc="PAPi::addKeggCodes">addKeggCodes</a></code>.


metabolomicsData: An example of metabolomics data set used by `addKeggCodes`.

Description

Usage

Arguments

Format

Examples