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roddypr committed Dec 6, 2021
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Expand Up @@ -16,7 +16,7 @@ All steps relating to read filtering, mapping and genotype calling are presented
## Phylogenetic inferences

We inferred the phylogenetic tree of the species and of the supergene using two different approaches:
1. A coalescent-based approached detailed in the directory [Coalescence-based phylogenies](Coalescence-based phylogenies).
1. A coalescent-based approached detailed in the directory [Coalescence-based phylogenies](`Coalescence-based phylogenies`).
2. A concatenated alignment approach detailed in the directory [Phylogenies inferred with concatenated SNPs](Phylogenies inferred with concatenated SNPs)
3. A dated phylogeny approach detailed in the directory [Dating divergence times](Dating divergence times)
4. Quantification of introgression support using QuIBL [QuIBL analysis](QuIBL analysis)
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