"Normalize Plates (Z-Score)" node formula

ShuLiu · October 5, 2023, 1:14pm

Dear all,

i am using the “Normalize Plates (Z-Score)” node, robust method to normalize my screen data. I chose the robust method, which should be the following formula:
x.zscore = (x – median(x[subset]))/mad(x[subset])
Since for robust z-score calculation, the scale factor 1.4826 is used to put the MAD on the same scale with standard z-score. I am wondering the definition of the formula here, if the mad(x[subset]) already multiple with 1.4826 or there is no scale factor in this node, then I need to add a extra node math formular to divide all normalized robust z-score by 1.4826 to bring the robust z-score to same scale as standard z-score.

Thank you for your answer

Shu

izaychik63 · October 6, 2023, 8:46pm

This is a source code

github.com

knime-mpicbg/HCS-Tools/blob/dd07ec2638c4650bdc032cc7458b13d8d7b2f02b/de.mpicbg.knime.hcs.base/src/de/mpicbg/knime/hcs/base/nodes/norm/zscore/ZScoreNormalizerNodeFactory.java

package de.mpicbg.knime.hcs.base.nodes.norm.zscore;

import org.knime.core.node.NodeDialogPane;
import org.knime.core.node.NodeFactory;
import org.knime.core.node.NodeView;

/**
 * Created by IntelliJ IDEA.
 * User: Antje Niederlein
 * Date: 8/8/12
 * Time: 11:41 AM
 */
public class ZScoreNormalizerNodeFactory extends NodeFactory<ZScoreNormalizerNodeModel> {
    @Override
    public ZScoreNormalizerNodeModel createNodeModel() {
        return new ZScoreNormalizerNodeModel();  //To change body of implemented methods use File | Settings | File Templates.
    }

    @Override
    protected int getNrNodeViews() {

This file has been truncated. show original

system · January 4, 2024, 8:47pm

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