Software

Code and data for RUPEE are available at https://github.com/rayoub/rupee

This website and the RUPEE backend make use of the following freely available software.

BioJava
Parsing and aligning protein structures
jQuery
JavaScript library
Bootstrap
HTML styling
PostgreSQL
Backend database
ChemDoodle
3d alignments

References

Please use the second reference for citations.

Initial conference publication.
Ayoub R, Lee Y. RUPEE: Scalable protein structure search using run position encoded residue descriptors. In: 2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM); 2017. p. 74–78
Improved and extended.
[CITE] Ayoub R, Lee Y. RUPEE: A fast and accurate purely geometric protein structure search. PLoS ONE. 2019;14(3):1–17
For further information, email me at ronaldayoub@mail.umkc.edu.