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A hands-on introduction on molecular phylogenetic studies

Introduction

Before starting, why phylogenetic inference?
What is a phylogenetic tree?
The root of the tree
How to write trees

Phylogenetic analyses in a nutshell

Main steps for phylogenetic reconstruction
Dependencies and softwares

Species selection

Species selection (step 1)

A phylogenetic pipeline

Align (step 2)
Trim alignment of irrelevant or positions/columns that might add noise (step 3)
Phylogenetic analyses (step 4)

Tree thinking

Interpreting the tree (step 5)

Conclusion

Conclusion
Summary
Further reading

Repository
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By Miguel M. Sandin

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