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GetExchange

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Jul 11, 2022 9:45 AM
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This components extracts from the model a set of exchange reactions in a way similar to [[GetBoundaryReactions]]. An exchange reaction is a reversible reaction that adds to or removes an extracellular metabolite from the extracellular compartment. In most cases only exchange reactions are added to the model, so this node and [[GetBoundaryReactions]] will provide the same table. The output table contains subset of columns returned for reaction by [[PrepareNodes]] component: - **ID**: The identifier to associate with this reaction in the model; - **Name**: a human readable name for the reaction; - **Equation**: a human readable reaction string with metabolite IDs; - **Subsystem**: a subsystem to which the reaction is meant to belong; - **Lower bound**: the lower bound for the reaction flux; - **Upper bound**: the upper bound for the reaction flux; - **Type**: 'reaction' This component rexports the Cobra Model object without any modifications to simplify structure of workflow.

Component details

Input ports
  1. Type: Python
    model
    Cobra Model object from other FBA components.
Output ports
  1. Type: Table
    reactions
    a table with properties of exchange reactions.
  2. Type: Python
    model
    Cobra Model object from the input port of the component.

Used extensions & nodes

Created with KNIME Analytics Platform version 4.3.4
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    KNIME Python Integration

    KNIME AG, Zurich, Switzerland

    Version 4.3.3

    knime

This component does not have nodes, extensions, nested components and related workflows

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