Workflow of gene family evolution study:
1. Analysis Method
Sequence Collection
PlantTribe, PlantGDB, GenBank, Conifer DBMagic assemblies
25 taxa comprising of 71 sequences
2. Phylogenetic analysis
Maximum Likelihood: RAxML (Stamatakis et. al)
Bayesian Method: MrBayes (Huelsenbeck, et al.)
Tree reconciliation: NOTUNG 2.6 (Chen et al.)
3. A case study
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3394424/
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