pastis: 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.

Version: 0.1-2
Depends: R (≥ 2.10), caper (≥ 0.5.0), ape (≥ 3.0.0)
Published: 2013-09-11
Author: Klaas Hartmann, Gavin Thomas, Arne Mooers, Jeffrey Joy, Walter Jetz
Maintainer: Gavin Thomas <gavin.thomas at>
License: GPL (≥ 3)
NeedsCompilation: no
In views: Phylogenetics
CRAN checks: pastis results


Reference manual: pastis.pdf
Vignettes: Using PASTIS
Package source: pastis_0.1-2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
OS X Snow Leopard binaries: r-release: pastis_0.1-2.tgz, r-oldrel: pastis_0.1-2.tgz
OS X Mavericks binaries: r-release: pastis_0.1-2.tgz
Old sources: pastis archive