Phylogenetic Tools
description
Transcript of Phylogenetic Tools
Phylogenetic Tools
Phylogenetic ToolsTara and PawelConcept Map
Start with Known SequenceDownload MEGA (Molecular Evolutionary Genetics Analysis)
http://www.megasoftware.net/
Use MEGA Web Browser to Find Related SequencesGo to Align, Open Web browser
Do a BLAST (Basic Local Alignment Search Tool) search on the sequence
Choose sequences and Add to Alignment
Align Sequences
Make a treeGo back into main MEGA window
Several methods to choose fromNeighbor JoiningMaximum LikelihoodMaximum ParsimonyAnd more
Tree toolsDifferent views
Root tree
View subtrees
Add captions
Finished Tree
Mequite (Character Matrix)
Ancestral State Reconstruction
Make Trees PrettyProgram Description:
FigTree is designed as a graphical viewer of phylogenetic trees and as a program for producing publication-ready figures. As with most of my programs, it was written for my own needs so may not be as polished and feature-complete as a commercial program. In particular it is designed to display summarized and annotated trees produced by BEAST.FigTree
FigTree
FigTree
Save or Export TreeSave as image (PDF, TIFF, or EMF)
Export as different file types
Save tree session
Diigo Page for Tools Usedhttp://www.diigo.com/list/tarallk/phylogenetic-tools