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

In PAPi: Predict metabolic pathway activity based on metabolomics data

Description

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.

Usage

data(metabolomicsData)

Format

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.

Names

list of identified metabolites

Sample1

the abundance of each metabolite in Sample 1

Sample2

the abundance of each metabolite in Sample 2

Sample3

the abundance of each metabolite in Sample 3

Sample4

the abundance of each metabolite in Sample 4

Sample5

the abundance of each metabolite in Sample 5

Sample6

the abundance of each metabolite in Sample 6

Examples

data(metabolomicsData)
print(metabolomicsData)

Example output

Loading required package: svDialogs
Loading required package: KEGGREST
                       Names Sample1 Sample2 Sample3 Sample4 Sample5 Sample6
1                 Replicates   cond1   cond1   cond1   cond2   cond2   cond2
2                    Glucose     0.8     0.6     0.7     1.2     1.1     1.5
3       Fructose 6-phosphate     0.3     0.2     0.4     0.6     0.7     0.7
4 Glyceraldehyde 3-phosphate     1.1     1.5     1.2    <NA>    <NA>    <NA>
5        Glycerone phosphate     1.2     1.5     1.3     0.2     0.3     0.2
6      3-Phospho-D-glycerate     0.2     0.3     0.5     1.1       1     0.9

PAPi documentation built on Oct. 31, 2019, 3:19 a.m.