Phylogenetic Assembly with Soft Taxonomic Inferences

A pre-processor for mrBayes that assimilates sequences, taxonomic information and tree constraints as per xxx. The main functions of interest for most users will be pastis_simple, pastis_main and conch. The main analysis is conducted with pastis_simple or pastis_main followed by a manual execution of mrBayes (>3.2). The placement of taxa not contained in the tree constraint can be investigated using conch.


Reference manual

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0.1-2 by Gavin Thomas, 8 years ago

Browse source code at

Authors: Klaas Hartmann , Gavin Thomas , Arne Mooers , Jeffrey Joy , Walter Jetz

Documentation:   PDF Manual  

Task views: Phylogenetics, Especially Comparative Methods

GPL (>= 3) license

Depends on caper, ape

See at CRAN