Skip to main content

Calculate dN/dS ratio precisely (Ka/Ks) using a codon-by-codon counting method.

Project description

https://travis-ci.org/adelq/dnds.svg?branch=master https://img.shields.io/pypi/v/dnds.svg?maxAge=2592000?style=plastic

Calculate dN/dS ratio precisely (Ka/Ks) using a codon-by-codon counting method. Also calculates the pN/pS ratio precisely (previously referred to as dN/dS).

Usage

>>> sequence_1 = "ATGCTTTTGAAATCG"
>>> sequence_2 = "ATGCGTTCGAAGTCG"
>>> pnps(sequence_1, sequence2)
Fraction(38, 71)
>>> round(float(pnps(sequence_1, sequence2)), 3)
0.535
>>> round(dnds(sequence_1, sequence_2), 3)
0.467

Project details


Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Filename, size & hash SHA256 hash help File type Python version Upload date
dnds-2.1-py2.py3-none-any.whl (3.7 kB) Copy SHA256 hash SHA256 Wheel py2.py3 Apr 30, 2018

Supported by

Elastic Elastic Search Pingdom Pingdom Monitoring Google Google BigQuery Sentry Sentry Error logging AWS AWS Cloud computing DataDog DataDog Monitoring Fastly Fastly CDN DigiCert DigiCert EV certificate StatusPage StatusPage Status page