anvi-show-misc-data [program]

Show all misc data keys in all misc data tables.

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Can provide

Can consume

pan-db profile-db contigs-db

Usage

This program lists the additional data that is stored within a pan-db, profile-db or contigs-db. This is data that can be imported with anvi-import-misc-data and is displayed in the interactive interface.

When run, this program will output to the terminal a list of all additional data tables that are stored within the database. If you want to export a specific element of these as a text file, see anvi-export-misc-data.

What is displayed?

When running on a profile-db or pan-db, the output will display the following types of data:

• misc-data-items
• misc-data-layers
• misc-data-layer-orders (by default, this will include orders like abundance and mean_coverage (newick))

When running on a contigs-db, the output will display the following types of data:

• misc-data-nucleotides
• misc-data-amino-acids

These have no default values and will only contain data that has been imported with anvi-import-misc-data.

You also have the option to specify a specific kind of additional data table with -t. For example, to view only misc-data-items in a profile-db, just call

Similarly to importing and exporting additional data tables, you can also focus on a specific data group with the parameter -D.

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.