Systematics & Phylogenetic Software

General Websites

• http://taxonomy.zoology.gla.ac.uk/software.html
• http://evolution.genetics.washington.edu/phylip/software.html
• http://www.nickrentlab.siu.edu/SystematicsLinks.html

Phylogenetic Inference

• T.N.T.
• PAUP
• PHYLIP
• MrBayes

Sequence Alignment

• Align
• Clustal
• KAlign
• MAFFT
• MUSCLE
• T-Coffee

Biogeography

• Digital Taxonomy – Biogeography and GIS
• University of Oregon Geography Dept.

Character Evolution/Tree Manipulation

• MacClade
• Mesquite
• Treeview
• WinClada

Specimen Databasing

• Biota
• Mantis
• Mandala
• Specify
• Species File Software (SFS)

Digital Keys

• 3I Digital Keys and Taxonomic Databases
• Delta/IntKey
• Discover Life
• LUCID