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GCG: Pattern Recognition

  • Reinhard Dölz
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 24)

Abstract

Pattern recognition in biological data is difficult to achieve. On the one hand, it is simple trying to find information based on identity of patterns described in a search string. Method 1 and 2 describe such a pattern search for text strings. More sophisticated searches use a pattern definition language (e.g., method 6 and 7), whereas a different approach just counts given patterns and plots or tabulates the result (method 3 and 4). Another method of pattern recognition is to try to find repeats in a given sequence, which is basically the pattern and search with patterns to be found by the program itself (method 8). Note that searching for a reading frame also uses pattern searching methods (in the most simple case, just by detection of ATG), but this kind of pattern search is described in  Chapter 11. Similarly, sequence searching with profiles, which is described in  Chapter 9, is also a kind of pattern search not listed here.

Keywords

Output File Pattern Search UNIX System Program Consensus Entry Code 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Reference

  1. 1.
    Devereux, J., Haeberli, P., and Smithies, 0. (1984) A comprehenswe set of sequence analysis programs for the VAX. Nucleic Acids Res. 12, 387–395.PubMedCrossRefGoogle Scholar

Copyright information

© Humana Press Inc., Totowa, NJ 1994

Authors and Affiliations

  • Reinhard Dölz
    • 1
  1. 1.BiocomputingBiozentrum der Universitiit BaselSwitzerland

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