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ImageJ Macro

StreamableKNIME ImageJ Core Plugin version 0.11.6.v201906271615 by University of Konstanz

Applies ImageJ (http://rsbweb.nih.gov/ij/) macros to images.

Options

Snippets
There some predefined macros that can be selected and added to list of macros. The macros are applied in the order they have been added. The configuration of the macros can either be done 'user-friendly' through an interface or by typing the code directly. To use/write a custom macro just use the 'Pure Code'-filter. Note that not every macro-code is compatible with KNIME which can lead in some cases to an unexpected results.

Additional Options

Return result table entries as strings
If checked, the entries of ImageJ-Result table will be returned as String, else as Doubles.

Column Selection

Column Creation Mode

Mode how to handle the selected column. The processed column can be added to a new table, appended to the end of the table, or the old column can be replaced by the new result

Column Suffix
A suffix appended to the column name. If "Append" is not selected, it can be left empty.
Column Selection
Selection of the columns to be processed.

Input Ports

Images

Output Ports

Processed Images
The ImageJ results table if available (e.g. using the "Analyze Particles"-macro).

Views

Image Viewer
Another, possibly interactive, view on table cells. Displays the selected cells with their associated viewer if it exists. Available views are:
- Combined View
-- A viewer shown when the user selects an interval of rows and columns in the viewer. This viewer combines all images and labelings in the selected interval to one image by rendering them next to each other. Alternatively, the images and labelings can be layed over each other.
- Image Viewer
-- This viewer renders the selected image-cell.
- Labeling View
-- View on a labeling/segmentation
- Missing Value Viewer
-- An empty viewer that is shown when the input cell has no value to display.
- BigDataViewer
-- A viewer shown when the user selects an interval of rows and columns in the viewer. This viewer combines all images and labelings in the selected interval to one image by rendering them next to each other. Alternatively, the images and labelings can be layed over each other.
- Histogram Viewer
-- This viewer shows the histogram of the currently selected image.
- XML
-- XML tree
- ClearVolume
-- ClearVolume-KNIME integration. The viewer is capable of CUDA rendering of ImgPlus images. If CUDA is not available a OpenCL render will be used. For more information see 'https://tech.knime.org/book/clearvolume'. Credits to: Loic Royer, Martin Weigert, Ulrik Guenther, and Florian Jug.

Best Friends (Incoming)

Best Friends (Outgoing)

Workflows

Installation

To use this node in KNIME, install KNIME Image Processing - ImageJ Integration (Beta) from the following update site:

KNIME 4.1
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Developers

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