align_batches: Align features between batches

In antonvsdata/amp: Smoothing Metabolomics Analyses

Description

Aligns features with m/z or retention time shift between batches using alignBatches from batchCorr package. See more details in the help file and the original paper.

Usage

align_batches(object_na, object_fill, batch, mz, rt, mzdiff, rtdiff,
  plot_folder = NULL)

Arguments

object_na	a MetaboSet object with missing values as NA
object_fill	a similar MetaboSet object with imputed values (used to compute distances between features, can contain missing values as well)
batch	character, column name of pData with batch labels
mz, rt	column names of m/z and retention time columns in fData
mzdiff, rtdiff	the windows for m/z and retention time for aligning features
plot_folder	path to the location where the plots should be saved, if NULL, no plots are saved

Value

a MetaboSet object with the aligned features

antonvsdata/amp documentation built on Jan. 8, 2020, 3:15 a.m.