combinedTable: Obtain Feature Alignment Report

In hhabra/Combiner: Method for Combining LC-MS Metabolomics Feature Measurements

Obtain Feature Alignment Report

Description

Obtain constructed table reporting every feature pair alignment.

Usage

combinedTable(object)

## S4 method for signature 'metabCombiner'
combinedTable(object)

Arguments

object

metabCombiner object.

Value

Feature Pair Alignment report data frame. The columns of the report are as follows:

idx	Identities of features from dataset X
idy	Identities of features from dataset Y
mzx	m/z values of features from dataset X
mzy	m/z values of features from dataset Y
rtx	retention time values of features from dataset X
rty	retention time values of features from dataset Y
rtProj	model-projected (X->Y) retention times values
Qx	abundance quantile values of features from dataset X
Qy	abundance quantile values of features from dataset Y
group	m/z feature group of feature pairing
score	computed similarity scores of feature pairing
rankX	ranking of pairing score for X dataset features
rankY	ranking of pairing score for Y dataset features
adductX	adduct label of features from dataset X
adductY	adduct label of features from dataset Y
...	Sample and extra columns from both datasets X & Y

Examples

data(plasma30)
data(plasma20)

p30 <- metabData(head(plasma30,500), samples = "CHEAR")
p20 <- metabData(head(plasma20,500), samples = "Red")

p.comb <- metabCombiner(p30, p20)
p.comb.table <- combinedTable(p.comb)

hhabra/Combiner documentation built on June 5, 2024, 10:56 a.m.