Galaxy |

Summarize taxa (version 1.9.1.0)

Input OTU table:

Taxonomic level to summarize by:

Input metadata mapping:

If supplied, then the taxon information will be added to this file. This option is useful for coloring PCoA plots by taxon abundance or to perform statistical tests of taxon/mapping associations

Relevant observation metadata key:

Include metadata as string?:

By default, metadata is included as list

Report absolute abundance?:

By default, relative abundance is reported

Percentage threshold to remove highly present OTU:

If present, OTUs having higher absolute abundance are trimmed. To remove OTUs that make up more than 5% of the total dataset you would pass 0.05

Percentage threshold to remove lowly present OTU:

If present, OTUs having lower absolute abundance are trimmed. To remove the OTUs that makes up less than 45% of the total dataset you would pass 0.45

Transpose output?:

If checked, the output will be written transposed from the regular output. This is helpful in cases when you want to use Site Painter to visualize your data

Suppress creation of the classic (TSV) format taxon table?:

This option is ignored if a mapping file is present

Suppress creation of the BIOM-formatted taxon table?:

This option is ignored if a mapping file is present

What it does

This tool provides summary information of the representation of taxonomic groups within each sample. It takes an OTU table that contains taxonomic information as input.

More information about this tool is available on QIIME documentation.