gaal

Library that implements an Enhanced Suffix Array and a Linearized Suffix Tree
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gaal Ranking & Summary

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  • Rating:
  • License:
  • Apache
  • Publisher Name:
  • Alex Kislev
  • Publisher web site:
  • http://code.google.com/u/105544942444950935699/
  • Operating Systems:
  • Mac OS X
  • File Size:
  • 478 KB

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gaal Description

gaal (Gappy Aligner) is a free and open-source Java library that implements an Enhanced Suffix Array and a Linearized Suffix Tree. gaal was developed with a flexible API in mind and allows for any type of underlying sequences, sorting algorithms etc. to be used. Moreover, gaal provides an implementation of a so-called Embedded Suffix Tree, which could be used to discover discontinuous (gappy) repeats. Finally, a basic vector-space-model-based aligner is included for repeat alignment.


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