Outline

8.1. Outline#

  • We introduce the main data formats used in molecular evolutionary analyses.

  • We introduce the core cogent3 objects for manipulating biological data.

  • We apply cogent3 to simple examination of genetic variation.

  • We explore the relationship between genetic variation and protein coding sequence using cogent3 GeneticCode objects.

  • We introduce ``cogent3``apps, which perform discrete tasks ranging from data sampling to performing hypothesis tests.

  • We apply cogent3 to performing the statistical modelling and hypothesis testing outlined in the Molecular Evolution topic.