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BABA

BABA. Basic-Algorithms-of-Bioinformatics Applet. Why?. Interactive demos helps a lot to understand a problem Very few interactive works available on the net only for simple dynamic programming limited parameters really ugly source code rarely available. Goals.

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BABA

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  1. BABA Basic-Algorithms-of-Bioinformatics Applet

  2. Why? • Interactive demos helps a lot to understand a problem • Very few interactive works available on the net • only for simple dynamic programming • limited parameters • really ugly • source code rarely available

  3. Goals • Make algorithms fully understandable and interactive: • Simple Dynamic Programming Table • Needleman & Wunsch • Smith & Waterman Local Search • Four Russians • Easy to use • Highlight the important aspects • Let the user play with the parameters

  4. Implementation • Java 1.2 compatible • Applet running on • Browser (on the net) • Applet viewer • Swing + Graphics 2D: nice to see!

  5. Basic layout for other DP algorithms • Easy to extend! • The four algorithms extends • The basic graphic grid class • The interface • The algorithm execution model • published under GPL

  6. Let’s see some action!

  7. Info • ~ 8600 lines of code • Basic Grid • DP Grid • NW Grid • SW Grid • FR Grid • Basic DP Algorithm • NW Algorithm • SW Algorithm • Four Russians Sweeeet BABA!

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