BAli-Phy 2.2.0 is released

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Benjamin Redelings

Jan 28, 2014, 4:28:36 PM1/28/14
BAli-Phy 2.2.0 is finally released after more than two years of development.

This release does not have too many new features, because much of the core infrastructure was rewritten.

The main new features are: (
- site-dependent codon models: M1a, M2a, M2a_Test
- branch-site codon models: branch-site[2,HKY,F3x4]
- inference of ancestral sequences at internal nodes

You can download binaries for Linux, Mac, and Windows here:

You can read the updated manual here:

If you have any trouble using bali-phy, please post your questions
to and I will try to respond quickly.

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