PHYLOGENETICS

o Overviews:

§ Phylogenetic methods:

· Mark Siddall’s “Phylogenetics: just methods”

o Computer programs:

§ Programs first used in my publications:

· Concat

· Condense

· Maxclique

§ Alignment programs:

· ClustalX

· CodonAlign

· DCA

· Dialign

· Malign

· POY

§ Gap-coding programs:

· SeqState

· Gap Recoder

§ Phylogenetics programs:

· MacClade

· MEGA

· Mesquite

· MrBayes

· PAUP*

· Phylip

· TNT

· WinClada, NONA

o Databases:

§ Sequence databases:

· EMBL

· GenBank

· Swiss-Prot

§ Matrix databases:

· TreeBase

§ Tree databases:

· Tree of Life

o Societies:

§ Society of Systematic Biologists (Systematic Biology)

§ Willi Hennig Society (Cladistics)

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