Normalize Plates (POC)

HCS-Tools for KNIME version 3.2.0.v201811271042 by Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG)

Options

Group data by

Select the column to define the groups (e.g. "barcode" for plate-wise normalization). Select >none< for no grouping (e.g. normalization of the whole screen based on all negative controls available).

Normalize

Select the columns with data to be normalized.

Column with reference label

Select the column which contains the label defining the reference subset (e.g. treatment)

Subset / well annotation

Select a subset that is used to calculate mean (median) for each group (e.g. "negative control").

Replace existing values

If checked the raw values will be replaced by the normalized values. Otherwise columns with the normalized values will be appended - ".poc"

Use robust statistics

Median will be calculated instead of mean.

Column suffix

The default column suffix ".poc" can be changed

Load a limited number of columns

If big data tables create memory problems, the number of columns read in memory (subset data) can be restricted. Then, statistic calculation will be done sequential for each set with the given number of columns.

Input Ports

Input table

Output Ports

Table with normalized values

Table with statistics used for normalization

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Best Friends (Outgoing)

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• Normalize Plates (Z-Score) (4 %) Manipulator
• Outlier Removal (4 %) Source
• R Plot (4 %) Visualizer
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• Group Loop Start (4 %) LoopStart
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• Row Filter (4 %) ManipulatorStreamable
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Workflows

• 03_Normalization_of_screening_data

Update Site

To use this node in KNIME, install HCS-Tools for KNIME from the following update site: