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PANOW (Poisson Approximation for the Numbers of Occurrences of Words)

General description

PANOW is a software dedicated to the search of rare words in biological sequences (over- or under-represented words in DNA or protein sequences). Using recent results on occurrence times of a string of symbols in a stochastic process with mixing properties (such as Markov chains), it computes point by point error between the law of the number of occurrences of a word and the Poisson approximation of this law. Then, it gives a limit number of occurrences from which a word can be considered as a rare word.

PANOW is written in ANSI Cplusplus and developed on x86 GNU/Linux systems with GCC 3.4, and successfully tested with GCC latest versions on Sun and Apple Mac OSX systems. It relies on seqpp library. Compilation and installation are compliant with the GNU standard procedure. PANOW is licensed under the GNU General Public License (GNU GPL).


You have to download seqpp before downloading PANOW.

Help for use is also available here.

Detailed description and references

  • A full description is available in [3].
  • More details on the mathematical proofs are available in [1] and [2].

[1] M. Abadi and N. Vergne. Sharp error terms for return time statistics under mixing conditions, Journal of Theoretical Probability, Volume 22, Number 1, 18-37, 2010.

[2] M. Abadi and N. Vergne. Sharp error terms for point-wise Poisson approximations under mixing conditions: A new Approach, submitted.

[3] N. Vergne and M. Abadi. Poisson approximation for search of rare words in DNA sequences, ALEA Vol. 4 pp. 223-244, 2008.

logiciels/panow.txt · Last modified: 2014/11/28 15:51 (external edit)

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