KNIME Workflow for RetroRules and Retropath2.0

Created: 2018-07-26 12:52:55      Last updated: 2018-08-11 18:00:56

KNIME Workflow for RetroRules and RetroPath2.0

This worflow provides an examples of retrieving the RetroRules reaction rules for some given reaction identifiers.

1. Input to the workflow: Chemical reactions expressed using public database identifiers.
2. Each reaction queries RetroRules and outputs the corresponding reaction rules.
3. Resulting list of rulesenzymes is stored in a csv file in RetroPath2.0 format.

Installation notes
The workflow runs a Python scrpt that requires pandas: Python Data Analysis Library. In order to setup the Python Extension, please check the KNIME documentation:

Release: r20180811

How to cite
Duigou T, Du Lac, M., Carbonell P, Faulon JL. RetroRules: a database of reaction rules for engineering biology.

Please report bugs to

Worfklow Licence: CC BY-SA
P. Carbonell, 2018.

This work is licensed under the Creative Commons Attribution-ShareAlike 4.0 International License. To view a copy of this license, visit

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