perform_repeatability: Compute repeatability measures

In antonvsdata/amp: Smoothing Metabolomics Analyses

Description

Computes repeatability for each feature with the following formula:

\frac{σ^2_{between}}{σ^2_{between} + σ^2_{within}}

The repeatability ranges from 0 to 1. Higher repeatability depicts less variation between batches.

Usage

perform_repeatability(object, group)

Arguments

object	a MetaboSet object
group	column name of pData givinh the group labels

Value

data frame with one row per feature with the repeatability measure

Examples

# Batch correction
batch_corrected <- normalize_batches(merged_sample, batch = "Batch", group = "QC", ref_label = "QC")
# Evaluate batch correction
rep_orig <- perform_repeatability(merged_sample, group = "Group")
mean(rep_orig$Repeatability)
rep_corr <- perform_repeatability(batch_corrected, group = "Group")
mean(rep_corr$Repeatability)

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