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Gibbs-Sampler

Python implemetation of the GIBBS sampling algorithm for finding patterns in biological sequences

Requirement

python 2.7. No library is required

Scripts

Contacts: THANH HOA NGUYEN [email protected] KRAMDI AMIRA [email protected] April 2013

GibbsFinalVersion.py : GibbsSampler class IhmFinal.py : GUI

Usage :

python IhmFinal.py
  • Enter sequencing using 'browse' button
  • View the uploaded sequences using the 'preview' button
  • Enter number of iteration using 'iteration'
  • Enter motif length using 'W'
  • Define alphabet: 'nucleic', or 'proteic'
  • Run the algorith 'run'

Output:

In the preview pannel, the detected motifs are highlighted between [ .. ]

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