Whole-genome prokaryotic phylogeny. - Stefan R. Henz; Daniel H. Huson; Alexander F. Auch; Kay Nieselt-Struwe; Stephan C. Schuster (Bioinform., 2005)

Genome BLAST distance phylogenies inferred from whole plastid and whole mitochondrion genome sequences. - Alexander F. Auch; Stefan R. Henz; Barbara R. Holland; Markus Göker (BMC Bioinform., 2006)

etagenome Analysis using Megan. - Daniel H. Huson; Alexander F. Auch; Qi Ji; Stephan C. Schuster (APBC, 2007)

COPYCAT : cophylogenetic analysis tool. - Jan P. Meier-Kolthoff; Alexander F. Auch; Daniel H. Huson; Markus Göker (Bioinform., 2007)

AxPcoords & parallel AxParafit: statistical co-phylogenetic analyses on thousands of taxa. - Alexandros Stamatakis; Alexander F. Auch; Jan P. Meier-Kolthoff; Markus Göker (BMC Bioinform., 2007)

Methods for comparative metagenomics. - Daniel H. Huson; Daniel C. Richter; Suparna Mitra; Alexander F. Auch; Stephan C. Schuster (BMC Bioinform., 2009)

Large-Scale Co-Phylogenetic Analysis on the Grid. - Heinz Stockinger; Alexander F. Auch; Markus Göker; Jan P. Meier-Kolthoff; Alexandros Stamatakis (Int. J. Grid High Perform. Comput., 2009)

A phylogenetic potpourri: computational methods for analysing genome scale data. - Alexander F. Auch (2009)

Genome sequence-based species delimitation with confidence intervals and improved distance functions. - Jan P. Meier-Kolthoff; Alexander F. Auch; Hans-Peter Klenk; Markus Göker (BMC Bioinform., 2013)

Highly parallelized inference of large genome-based phylogenies. - Jan P. Meier-Kolthoff; Alexander F. Auch; Hans-Peter Klenk; Markus Göker (Concurr. Comput. Pract. Exp., 2014)