Galaxy |

Classify.seqs (version 1.39.5.0)

fasta - Candiate Sequences:

Select Reference Template from:

reference - Reference to align with:

Select Taxonomy from:

taxonomy - Taxonomy reference:

method - Select a classification method:

ksize - kmer length:

iters - iterations to do when calculating the bootstrap confidence score:

cutoff - specify a bootstrap confidence threshold for your taxonomy:

probs - Show probabilities:

count file:

names file:

relabund - allows you to indicate that you want the summary files to be relative abundances rather than raw abundances:

Tax summary output type:

The detail format outputs the totals at each level, where as the simple format outputs the highest level

Print level:

specify taxlevel of your *tax.summary file to print to. Options are 1 to the maz level in the file. The default is -1, meaning max level

Output logfile?:

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 classify.seqs command assigns sequences to chosen taxonomy outline.

v1.22.0: Updated for Mothur 1.33. Added count parameter (1.28), added relabund parameter (1.33), bayesian term changed to wang.