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PhyloCoco is a minimalist tool for molecular phylogenetics able to rebuild phylogenies by means of the likelihood criterion. Phylococo automatically selects the best substitution model of DNA evolution for the dataset of sequences to be analyzed and display after a short time the best so far phylogeny found.

PhyloCoco features:
PhyloCoco implements the algorithms described in [D. Catanzaro, R. Pesenti and M. C. Milinkovitch. Estimating phylogenies under maximum likelihood: a very large-scale neighborhood approach. Submitted to BMC Bioinformatics. Currently under second revision] and hereafter summarized:

What's New

Version 2.3: Release notes were unavailable when this listing was updated.


A G4 or an Intel Core Duo processor; Mac OS X 10.4 or later, Java 1.4 or later Recommended: an Intel Core 2 Duo, Mac OS X 10.5.3 or later, Java 1.5 or later

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PhyloCoco User Discussion

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umijin Member IconComment+72

Doesn't work on my Intel MacMini with Leopard. It won't even open the test file.

Idea sounds great though.

Reply7 replies
Version 1.0d
- (Developer)

Yes, this can happen. The computational core is compiled under mac os 10.4.10 and it is untested on Leopard.

As soon the new version for OS 10.5 will be released.

- (Developer)

Please check your CPU type. In fact, the code is compiled specifically for an intel core 2 duo (the processor of a macbook pro to be precise). Maybe that's the problem.


To the developer: The application is stated to be a Universal binary when a 'Get Info' command is issued against the application.

- (Developer)

Right, but this only for the graphical application. The external executables are strongly optimized for the intel core 2 duo.


OK, so please make that point clear in the product description.

And consider making it at least functional on core duos, as not all of us have core 2.


And still others (me) are perfectly happy running Leopard on their PPC iBook G4s they got a while before the Macbooks even existed.

- (Developer)

PhyloCoco 2.2 run on any processor now.

Please note however that the ppc and x86 generic code is still not so optimized as the one for intel core 2 duo.

We are working hard to release new optimized computational cores. Thanks for the patience.

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Current Version (2.x)


Downloads 1,621
Version Downloads 525
License Free
Date 05 Aug 2009
Platform OS X / PPC 32 / Intel 32
Price Free
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