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Auden Cote-L'Heureux 2025-01-22 13:00:44 -05:00
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@ -4,6 +4,8 @@ The core EukPhylo pipeline comprises two main components, which we refer to as E
We also provide a suite of utility scripts for describing data output by EukPhylo (e.g. basic sequence statistics such as composition, coverage, and length) as well as performing some of EukPhylo's more complex operations (e.g. "clade-grabbing") in a stand-alone form.
Note that EukPhylo used to go by the name of "PhyloToL," hence some residual instances where we refer to "PTL1" and "PTL2" instead of "EukPhylo part 1" and "EukPhylo part 2" respectively (for instance, in the Github folder structure).
## EukPhylo Part 1 – Gene family assignment
* [Overview and modularity](https://github.com/Katzlab/EukPhylo/wiki/EukPhylo-part-1:-gf-assignment#overview-and-modularity)
* [Setup](https://github.com/Katzlab/EukPhylo/wiki/EukPhylo-part-1:-gf-assignment#setup)