Sequence Alignment and Phylogenetic Tree Interpretation

Monday 12th March 2012

Basic Molecular Evolution and Phylogenetics Training Course

Institute of Biodiversity and Ecosystem Research, BAS, Sofia, Bulgaria

Aidan Budd

Exercises

Main Presentations

• Alignments
• Phylogenies

Reserve (i.e. in case we need them) Presentations

• Solving the MSA problem
• Common patterns in protein MSAs
• ClustalX colouring scheme
• Applications of phylogenies
• Newick/Phylip tree format
  

Software Guides

• CLUSTALX
• Dendroscope
• Jalview
• NJplot
• ProtTest
• PyMOL
• RAxML

References

Links to software and webservers