PRAP 2.0b3 – Parsimony & Likelihood Ratchet Analysis with PAUP*

PRAP 2.0b3

:: DESCRIPTION

PRAP (Parsimony and likelihood ratchet analyses with PAUP*) allows the calculation of Bremer support (BS, Decay values; Bremer 1988) using the parsimony ratchet algorithm (Nixon, 1999). Alternatively, BS can also be computed without using the ratchet.In addition, simple Parsimony Ratchet searches can be performed with PRAP, also by superposing random addition cycles onto the published ratchet procedure (Nixon, 1999) to further decrease the slight risk that even the Ratchet gets stuck in a single series of cycles. Here, a series of ratchet iterations (commonly about 200 iterations) is repeatedly started from different starting trees, and shortest trees from all these iterations series are collected.

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::DEVELOPER

BioInfWeb projects

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / Windows / Mac OsX
  • Java

:: DOWNLOAD

PRAP

:: MORE INFORMATION

Citation

Müller K
The efficiency of different search strategies in estimating parsimony jackknife, bootstrap, and Bremer support
BMC Evolutionary Biology 2005, 5:58

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