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HCS-Tools for KNIME version 4.0.0.v202007151505 by Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG)

The node is dedicated to ease the processing of microscope or plate reader data. It annotates meta information and/or layout data by a certain position in the plate. The meta information is provided by an Excel sheet which follows a specific formatting. The sheet can contain different layers of information (e.g. compound name, compound concentration, ...).

The first layer has to start at C5 in the Excel sheet. This position contains the layer name (used as column names in the output table).The next row (starting at D6) contains the plate column numbers (1,2,3,...), while column 5 (starting at C7) contains the plate row identifier (A,B,C,... or 1,2,3,...). The dimensions are limited to 1536 well format (32 rows, 48 columns). Dimensions have to be the same for all layers. Within the area defined by plate row and column identifiers cells can contain metainformation of different data types (string, double, integer) or left empty.
The next layer starts again with its name in column C with a gap of 2 rows to the previous layer. Each layer will result in a new column of the output table.
The input table has to provide two numeric columns representing the well position (plate row and plate column). See 'Plate Row Converter' node to convert row identifiers (A,B,C,...) to its integer representation.
For a screen shot and a download of an example file look here: HCS-Tools Wiki


Excel file containing a sheet with the meta information / layout data
Sheet name
Select the name of the sheet
Plate row
Numeric column containing the plate row identifier as whole number
Plate column
Numeric column containing the plate column identifier as whole number

Input Ports

Table contains microscope or plate reader data

Output Ports

Input table extended by a certain number of meta data columns

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Best Friends (Outgoing)



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