anvi-export-items-order
Table of Contents
Export an item order from an anvi'o database.
🔙 To the main page of anvi’o programs and artifacts.
Authors
Requires
Can use
Provides
misc-data-items-order-txt 
dendrogram 
phylogeny
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.
Command line interface
The following is the list of parameters and their descriptions in the latest version of anvi-export-items-order.
The code that generates this web page ensures that this information is the latest available in 9-dev (eunice). Which means, in some cases the information in this section (generated automatically) might be more comprehensive or up-to-date compared to the descriptions above (written by humans).
Command line usage
Parameters and their descriptions
-p, --db-pathDB PATH- An appropriate anvi'o database.
--nameORDER NAME- The name of the order you want to export. If you don't provide an order name, anvi'o will show you the names of all available orders in the database.
-o, --output-fileFILE_PATH- File path to store results.
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.