alignList: Alignment list

alignListR Documentation

Alignment list

Description

The list of aligned metabolites and their relative quantification for each sample in a given experiment

Usage

alignList(object, by.area = TRUE)

## S4 method for signature 'MetaboSet'
alignList(object, by.area = TRUE)

Arguments

object

A 'MetaboSet' S4 object containing the experiment data. The experiment has to be previously deconvolved, aligned and (optionally) identified.

by.area

if TRUE (default), eRah outputs quantification by the area of the deconvolved chromatographic peak of each compound. If FALSE, eRah outputs the intensity of the deconvolved chromatographic peak.

Details

Returns an alignment table containing the list of aligned metabolites and their relative quantification for each sample in a given experiment.

Value

alignList returns a data frame object:

AlignID

The unique Tag for found metabolite by eRah. Each metabolite found by eRah for a given experiment has an unique AlignID tag number.

Factor

the Factor tag name. Each metabolite has an unique 'Factor' name to enhance visual interpretation.

tmean

The mean compound retention time.

FoundIn

The number of samples in which the compound has been detected (the number of samples where the compound area is non-zero).

Quantification

As many columns as samples and as many rows as metabolites, where each column name has the name of each sample.

See Also

idList dataList


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