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@@ -13,6 +13,7 @@ We also provide a suite of utility scripts for describing data output by PhyloTo
 
 ## PhyloToL Part 2
 * [Overview & modularity](https://github.com/Katzlab/PhyloToL-6/wiki/phylotol-part-2#overview-and-modularity)
+* [Setup](https://github.com/Katzlab/PhyloToL-6/wiki/phylotol-part-2#setup)
 * [Overlap and similarity filters](https://github.com/Katzlab/PhyloToL-6/wiki/phylotol-part-2#overlap-and-similarity-filters)
 * [Guidance](https://github.com/Katzlab/PhyloToL-6/wiki/phylotol-part-2#guidance) 
 * [Gene trees](https://github.com/Katzlab/PhyloToL-6/wiki/phylotol-part-2#gene-trees)