How does one use modelgenerator and jmodeltest ?

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Manolo Perez

Dear Chahrazed Rahmouni,

jModeltest is a software for testing among competing models of substitution for sequence data. It will analyze your sequences and return the model of substitution more suitable for your dataset. The selected model can be used in downstream programs for estimating phylogenies, estimate demographic parameters, etc.

Hope this Helps.

Best,

Brian Thomas Foley

The papers at the links below might help a bit.

http://www.biomedcentral.com/content/pdf/1471-2148-6-29.pdf

http://darwin.uvigo.es/download/papers/b04.modelPhylHandbook03.pdf