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MDS Projection

KNIME Base Nodes version 4.2.2.v202009241438 by KNIME AG, Zurich, Switzerland

This node maps data of a high dimensional space onto a lower (usually 2 or 3) dimensional space with respect to a set of fixed data points. Therefore modified Sammons mapping is applied, which iteratively decreases the difference of the distances of high and low dimensional data. When adjusting the position a low dimensional data point by default not its neighbors (or all other data points) are taken into account but a specified set of fixed data points which are not modified. Additionally the data points (and not only the fixed points) can be taken into account when adjusting its positions, therefore the setting "Project only" has to be unchecked. If the setting is checked the data points will be mapped only with respect to the fixed data, which we call a projection. The algorithm converges like a common mds algorithm due to a decreasing learning rate.

Options

Number of rows to use: Specifies the number of rows to apply the MDS on.
Output dimension: Specifies the dimension of the mapped output data.
Epochs: Specifies the number of epochs to train.
Learn rate: Specifies the learning rate to use. The learning rate is decreased automatically over the trained epochs.
Random seed: Specifies the random seed to use, which allows to reproduce a mapping even if the initialization is done randomly.
Distance metric: The distance metric to use Euclidean or Manhattan. The Euclidean distance metric is used by default.
Project only: If checked the input data is mapped only with respect to the specified fixed data points (see tab 'Fixed data'). If unchecked, the other (not fixed) data points are taken into account too, when adjusting the position of each single data point.
Input data: Specifies the columns to use by the mapping.
Fixed data: Specifies the columns to use as fixed data. Be aware that the chosen columns represent the lower dimensional data which is used to project the input data at. The number of columns to choose has to be equal to the value set for output dimension.

Input Ports

: Data table containing the fixed data points.
: Data table containing the data to map.

Output Ports

: The input data and the mapped data.

Best Friends (Incoming)

Best Friends (Outgoing)

Installation

To use this node in KNIME, install KNIME Base nodes from the following update site:

KNIME 4.2

A zipped version of the software site can be downloaded here. Read our FAQs to get instructions about how to install nodes from a zipped update site.

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