The Workflow Designer allows a molecular biologist to create and run complex computational workflow schemas even if he or she is not familiar with any programming language.
The workflow schemas comprise reproducible, reusable and self-documented research routines, with a simple and unambiguous visual representation suitable for publications.
The workflow schemas can be run both locally and remotely, either using graphical interface or launched from the command line.
The elements that a schema consists of corresponds to the bulk of algorithms integrated into UGENE. Additionally you can create custom workflow elements.
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To learn more about the Workflow Designer read the Workflow Designer Manual (follow the link on the UGENE documentation page).