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Anosim (version
design has 2 columns: group(col 1) and grouping(col 2) (separated by a TAB character)
default: 0.05
default: 1000

Mothur Overview

Mothur is a comprehensive suite of tools for microbial ecology community. It is initiated by Dr. Patrick Schloss and his software development team in the Department of Microbiology and Immunology at The University of Michigan. For more information, see Mothur-Wiki.

Command Documentation

The anosim command uses a phylip_distance_matrix and a design file to calculate the non-parametric multivariate analysis of changes in community structure.

A design file partitions a list of names into groups. It is a tab-delimited file with 2 columns: name and group, e.g. :
duck bird
cow mammal
pig mammal
goose bird
cobra reptile

The Make_Design tool can construct a design file from a Mothur dataset that contains group names.