anvi-export-splits-taxonomy
Table of Contents
Export taxonomy for splits found in an anvi'o contigs database.
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Authors
Requires
Provides
Usage
This program exports the taxonomy hits for the splits contained in a contigs-db, outputting them in a splits-taxonomy-txt.
To do this, anvi’o examines all of the annotated genes within your splits and returns the taxon ID with the most genes associated with it. For example, a split with 3 genes identified as E. coli, 2 genes identified as Staphylococcus aureus, and 1 as Streptococcus pneumoniae would be annotated as E. coli.
To run this program, just provide a contigs-db:
anvi-export-splits-taxonomy -c contigs-db \ -o PATH/TO/splits-taxonomy-txt
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-splits-taxonomy.
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
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.