From 48b1626e8909bea77ae570adf75aa38171aa1aa6 Mon Sep 17 00:00:00 2001 From: sof202 Date: Tue, 11 Mar 2025 10:49:27 +0000 Subject: [PATCH] feat: add normalisation violence metrics definitions --- array/DNAm/preprocessing/QC.rmd | 8 ++++++++ 1 file changed, 8 insertions(+) diff --git a/array/DNAm/preprocessing/QC.rmd b/array/DNAm/preprocessing/QC.rmd index ce840464..81f7f136 100755 --- a/array/DNAm/preprocessing/QC.rmd +++ b/array/DNAm/preprocessing/QC.rmd @@ -954,6 +954,14 @@ corrplot(cor(QCmetrics[,colsToKeep], use = "p")) ``` +The correlation plot above contains four normalisation violence metrics +(assessing the degree of difference between normalised and raw betas): + +* rmsd: root mean squared (of) differences +* sdd: standard deviation (of) differences +* sadd: standard absolute deviation (of) differences (|differences|) +* srms: standardised root mean squared (rmsd/sdd) + ## Reconfirm genetic relationships are correct