This tutorial is a 30 mins intro into the generation of phylogenetic profiles using a targeted ortholog search. It combines the search for two plant cell wall degrading enzymes in ca. 100 gene sets as well as in one unannotated genome assemblies.
Figure 1: Workflow of fDOG. Taken from Tran et al. 2025.
- Jupyter Notebook
- running instances of fDOG and PhyloProfile
Open the cellulase_comparison.ipynb notebook in this directory using Jupyter. It will take you through all steps of this tutorial.
You can find a selected list of publications in the docs/literature directory.