PF_HP Prediction of proteinfolding in 2D HP-model (English)
Even in the simplified two dimensional HP-model (hydrophob/polar) the prediction of proteinfolding is NP complete. We implement a brute force algorithm with serial and parallel execution to solve short inputs of HP sequences (0-1 bitstrings).
Selbst im vereinfachten zweidimensionalen HP-Modell (hydrophob/polar) ist die Proteinfaltung bereits NP-vollständig. Hier implementieren wir einen brute-force Algorithmus zur Lösung kurzer Eingabesequenzen (0-1-Bitstrings) für die Proteinfaltung.
Credits
======
Principle Investigator
--------------------------
Gerrit Leder: protein folding algorithm design and testing, and initial implementation in Eiffel.
Eiffel Consultant
---------------------
Finnian Reilly: Eiffel code optimization and parallel processing adaptation.
www.hex11software.com
finnian at eiffel hyphen loop dot com
Features
parallel computation with command line flag -pf2_mt
defaults to 4 threads can be customized with switch -threads ...
custom 0-1-bitstring with command line flag -sequence ...
serial algorithm with command line flag -pf2
Donate a Cappuccino:
Bitcoin: 1HqrdnfQgi9B4LW8UEvLAwh7X5gXPCoQ5B
Litecoin: LeCx44jGjHxiVZ8f6MyumLTCxPcp3ePKJT
Paypal:
paypal.me/GerritLeder
Impressum: Gerrit Leder