Microbial 'omics


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anvi-export-items-order [program]

Export an item order from an anvi'o database.

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

Table of Contents

Provides

misc-data-items-order-txt dendrogram phylogeny

Requires or uses

pan-db profile-db

Usage

This program, as one might think, allows you to export a misc-data-items-order, outputing a misc-data-items-order-txt.

You can export one of the item orders in a profile-db or pan-db as follows:

anvi-export-items-order -p profile-db \ --name cov

The cov here refers to the tree that is generated using only differential coverage. Almost all anvi’o profile databases will also have available an items-order based on the tetranucleotide frequency called tnf, and one based on both called tnf-cov.

However, to list the item orders available in this database, just don’t include the name flag.

anvi-export-items-order -p pan-db

You’ll get a Config Error that will tell you what item orders are available.

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.