createdt: Creating Experiment Tables

In erah: Automated Spectral Deconvolution, Alignment, and Metabolite Identification in GC/MS-Based Untargeted Metabolomics

Creating Experiment Tables

Description

eRah requires an instrumental and (optionally) phenotype .csv file for starting/creating a new eRah project/experiment. This function automatically creates the Phenoytpe and Instrumental data .csv files.

Usage

createdt(path)

Arguments

path	the path where the experiment-folder is (where the experiment samples are stored).

Details

The experiment has to been organized as follows: all the samples related to each class have to be stored in the same folder (one folder = one class), and all the class-folders in one folder, which is the experiment folder.

Two things have to be considered at this step: .csv files are different when created by American and European computers, so errors may raise due to that fact. Also, the folder containing the samples, must contain only folders. If the folder contains files (for example, already created .csv files), eRah will prompt an error.

See eRah vignette for more details. To open the vignette, execute the following code in R: vignette("eRahManual", package="erah")

See Also

newExp

Examples

## Not run: 
# Store all the raw data files in one different folder per class,
# and all the class-folders in one folder, which is the experiment
# folder. Then execute

createdt(path)

# where path is the experiment folder path.
# The experiment can be now startd by:

ex <- newExp(instrumental="path/DEMO_inst.csv", 
phenotype="path/DEMO_pheno.csv", info="DEMO Experiment")

## End(Not run)

erah documentation built on June 22, 2024, 11:01 a.m.