Microbial 'omics


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anvi-import-taxonomy-for-layers [program]

Import layers-level taxonomy into an anvi'o additional layer data table in an anvi'o single-profile database.

See program help menu or go back to the main page of anvi’o programs and artifacts.

Table of Contents

Provides

layer-taxonomy

Requires or uses

single-profile-db layer-taxonomy-txt

Usage

This program lets you associate your layers with taxonomic information through a single-profile-db.

This information is displayed in the interactive interface at the same place as misc-data-layers, which is point (4) on this page.

If instead you want the layers to represent taxonomic ranks, then you’ll want to take a look at this tutorial on phylogenomics.

Usually, the layers describe separate samples. However, when working with only one sample, you may break up different aspects of that sample to be represented in each layer, hence why you might want to associate them with taxonomic information.

To run this program, simply provide a layer-taxonomy-txt

anvi-import-taxonomy-for-layers -p single-profile-db \ -i layer-taxonomy-txt

You also have the option to change the minimum abundance cut off using --min-abundance. The default value is 0.1 percent.

Edit this file to update this information.

Additional Resources

Are you aware of resources that may help users better understand the utility of this program? Please feel free to edit this file on GitHub. If you are not sure how to do that, find the __resources__ tag in this file to see an example.