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Free download PF_HP to run in Linux online Linux app to run online in Ubuntu online, Fedora online or Debian online

This is the Linux app named PF_HP to run in Linux online whose latest release can be downloaded as einleitung.txt. It can be run online in the free hosting provider OnWorks for workstations.

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PF_HP to run in Linux online


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.

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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.
finnian at eiffel hyphen loop dot com


  • 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
  • To-Do: Bugfix pf3 and pf3_mt, Implementation w/ directions S, R and L
  • To-Do: make lib EL void-safe
  • To-Do: unit-tests on CLI and IDE


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This is an application that can also be fetched from https://sourceforge.net/projects/pfhp/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.

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