Microbial 'omics


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anvi-setup-interacdome [program]

Table of Contents

Setup InteracDome data.

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Authors

Can consume

This program seems to know what its doing. It needs no input material from its user. Good program.

Can provide

interacdome-data

Usage

This program (much like all of the other programs that begin with anvi-setup) sets up a local copy of the InteracDome database for anvi-run-interacdome as well as a local copy of Pfam v31.0, which is what InteracDome is defined for. Note that anvi’o only needs this program to be run once.

Specifically, this downloads InteracDome’s tab-separated files and the Pfam v31.0 HMM profiles for the Pfams in your InteracDome data. This data is stored in the interacdome-data artifact.

It’s easy as 1-2-3:

anvi-setup-interacdome

When running this program, you can provide a path to store your InteracDome data in. The default path is anvio/data/misc/InteracDome; if you use a custom path, you will have to provide it to anvi-run-interacdome with the same parameter. Here is an example run:

anvi-setup-interacdome --interacdome-data-dir path/to/directory

If you want to overwrite any data that you have already downloaded (for example if you suspect something went wrong in the download), add the --reset flag:

anvi-setup-interacdome --interacdome-data-dir path/to/directory \ --reset

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.