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CONSEL: for assessing the confidence of phylogenetic tree selection

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WHAT IS CONSEL?

CONSEL is a program package consists of small programs written in C language. It calculates the probability value (i.e., p-value) to assess the confidence in the selection problem. Although CONSEL is applicable to any selection problem, it is mainly designed for the phylogenetic tree selection. CONSEL does not estimate the phylogenetic tree by itself, but CONSEL does read the output of the other phylogenetic packages, such as Molphy, PAML, PAUP*, TREE-PUZZLE, and PhyML. CONSEL calculates the p-value using several testing procedures; the bootstrap probability, the Kishino-Hasegawa test, the Shimodaira-Hasegawa test, and the weighted Shimodaira-Hasegawa test. In addition to these conventional tests, CONSEL calculates the p-value based on the approximately unbiased test using the multi-scale bootstrap technique. This newly developed method gives less biased results than the conventional methods.


QUICK GUIDE: Using CONSEL is Easy! (updated 2008/09/12 for PAUP; 2010/01/30 for PhyML)

Handicraft: tree of life (PDF, YouTube and More)


REFERENCES

The computer software CONSEL and the theory behind it are described in the following papers. For the use of CONSEL, Shimodaira & Hasegawa (2001) may be referenced.


LINKS


CONSEL DOCUMENTS


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LATEST version 0.20, 2011-05-12

PREVIOUS version 0.1k, 2010-01-30

ANOTHER version 0.1j, 2008-09-12

OLDER version 0.1i, 2005-09-26


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Hidetoshi Shimodaira