Microbial 'omics

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anvi-script-calculate-pn-ps-ratio [program]

This program calculates for each gene the ratio of pN/pS (the metagenomic analogy of dN/dS; see doi:10.1038/nature11711 and doi:10.7717/peerj.2959) based on metagenomic read recruitment, however, unlike standard pN/pS calculations, it relies on codons rather than nucleotides for accurate estimations of synonimity.

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

Table of Contents


Requires or uses

contigs-db variability-profile-txt


No one has described the usage of this program :/ If you would like to contribute, please see previous examples here, and feel free to add a Markdown formatted file in that directory named “anvi-script-calculate-pn-ps-ratio.md”. For a template, you can use the markdown file for anvi-gen-contigs-database. THANK YOU!

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.