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2D shape recognition using biological sequence alignment tools

2D shape recognition using biological sequence alignment tools Manuele Bicego, Pietro Lovato (ICPR 2012). Motivation. PR  B Aligning sequences in bioinformatics B  PR ?. Sequence alignment. Needleman- Wunsch Global alignment Smith-Waterman Local alignment 4 or 22 letters

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2D shape recognition using biological sequence alignment tools

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  1. 2D shape recognition using biological sequence alignment tools Manuele Bicego, Pietro Lovato (ICPR 2012)

  2. Motivation • PR  B • Aligning sequences in bioinformatics • B  PR ?

  3. Sequence alignment • Needleman-Wunsch • Global alignment • Smith-Waterman • Local alignment • 4 or 22 letters • Use biological knowledge

  4. Shapes • 8 directions  8 symbols of amino acids • Shape  sequence of directional steps • Alignment similarity score • Class of most similar shape D, C, E, G, N, A

  5. Results • Data • Chicken pieces • Vehicles • Alignment • NW (Global) • SW (Local) • Parameters • Default (biological) • Reduced gap penalty

  6. Conclusion • + • Idea (PR  B) • Simple strategy • Parameters of alignment • - • Not very new? • Encoding or algorithm?

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