UGENE is a workflow designer tool that provides a flexible and extensible pipeline for biological sequence analysis. It includes tools for multiple sequence alignment, repeat finding, homology searches, phylogenetic trees, transcription factor binding sites, and supports over 20 data formats. The UGENE workflow can be run locally, allows sharing of files between schemes, and can import data into an internal database or pass file URLs. It also enables extending the pipeline with external applications and scripts through its implementation in C and support for Python.
