Ethos

In phylogenetics, standard practice is to simulate independent gene trees and force mutations onto them. In ipcoal, we instead simulate the spatial arrangement gene trees along chromosomes.

As a tool for research and teaching, it was important to us that ipcoal is person-friendly. To that aim, we made our tool accessible, reproducible, and transparent. Explore the documentation below and give it a try.

Our goals

  • Accessible: Easy to install and easy to use, with documentation and cookbooks.

  • Reproducible: Designed for interactive use in Jupyter notebooks for easy sharing.

  • Transparent: Read our code and make it your own.

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