Vim Alignment highlighting
:: DESCRIPTION
Vim Alignment highlighting. Vim highlighting files for DNA sequence alignments.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
- Linux/ MacOsX
:: DOWNLOAD
:: MORE INFORMATION
Vim Nexus syntax highlighting
:: DESCRIPTION
Vim Nexus syntax highlighting is Nexus syntax highlighting files for the Vim editor . Recognizes many/most of the PAUP/MrBayes commands.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
- Linux/ MacOsX
:: DOWNLOAD
:: MORE INFORMATION
MrModelfit 1.2/ Modelfit 1.2
:: DESCRIPTION
MrModelfit/Modelfit is the Perl script for running MrModeltest2/Modeltest
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux/ MacOsX
- Perl
:: DOWNLOAD
:: MORE INFORMATION
May 172012
Burntrees 0.1.9
:: DESCRIPTION
Burntrees is a script for manipulating tree (*.t, *.trprobs, *.con) and parameter (*.p) files from MrBayes (v.3). The script exctracts trees and (by default) the taxon translation table and the trailing “end;” from a MrBayes tree file.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux/ MacOsX
- Perl
:: DOWNLOAD
:: MORE INFORMATION
MrModeltest 2.3
:: DESCRIPTION
MrModeltest is a modified version of David Posada’s Modeltest. “Modified version” means that it was rewritten to compare 24 instead of 56 models of nucleotide substitution (basically a Modeltest version 1.0). On the other hand, all of the 24 models can be implemented in MrBayes version 3. Furthermore, MrModeltest uses (by default) four different hierarchies for the likelihood ratio tests.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux/ Linux/ MacOsX
:: DOWNLOAD
:: MORE INFORMATION
MrAIC 1.4.4
:: DESCRIPTION
MrAIC.pl is a Perl script for calculating AIC, AICc, BIC, and Akaike weights (for a review, see Burnham and Anderson, 2002) for nucleotide substitution models. Likelihood scores under different models are estimated using PHYML
pMrAIC is the version of MrAIC runs parallel instances of PHYML
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
MrMTgui 1.01
:: DESCRIPTION
MrMTgui is a freely available open source GUI for ModelTest (by David Posada) and MrModelTest (by Johan Nylander). It can be used in Windows and Linux systems. It is a natural evolution of MTgui, with the recent inclusion of MrModelTest capabilities.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
- Windows / Linux / MacOS
:: DOWNLOAD
:: MORE INFORMATION
Pensim 2.0
:: DESCRIPTION
Pensim is a modular simulation package for fed-batch fermentation: penicillin production. A detailed unstructured model for penicillin production in a fed-batch fermentor has been developed. The simulator is structured such that one may use different modules depending on the application needs of the user.
::DEVELOPER
The Process Modeling, Monitoring, and Control Research Group at IIT
:: SCREENSHOTS
:: REQUIREMENTS
- Windows
:: DOWNLOAD
:: MORE INFORMATION
Citation:
G. Birol, C. Undey and A. Cinar,
A Modular Simulation Package for Fed-batch Fermentation: Penicillin Production,
Computers and Chemical Engineering, 26(11), 1553-1565, 2002.
May 162012
MIMAR 20101217
:: DESCRIPTION
MIMAR (MCMC estimation of the Isolation-Migration model Allowing for Recombination) is a Markov chain Monte Carlo method to estimate parameters of an isolation-migration model. It uses summaries of polymorphism data at multiple loci surveyed in a pair of diverging populations or closely related species and in contrast to previous methods, allows for intralocus recombination. Note that you need to know the ancestral allele at each polymorphic site in order to calculate the summary statistics.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux
- C Compiler
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Becquet and Przewroski (2007)
A new approach to estimate parameters of speciation models with application to apes
Genome Res. 2007. 17: 000
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