Skip to main content

Scoring Multiple Sequence Alignments with Python

Project description


Scoring Multiple Sequence Alignments with Python

Build Status PyPI License PyPI Python version

pyMSA is an open source software tool aimed at providing a number of scores for multiple sequence alignment (MSA) problems. A tutorial about pyMSA is available in the resources folder of the proyect.


Score functions implemented:

  • Sum of pairs,
  • Star,
  • Minimum entropy,
  • Percentage of non-gaps,
  • Percentage of totally conserved columns and
  • STRIKE (Single sTRucture Induced Evaluation).


To download PyMSA just clone the Git repository hosted in GitHub:

$ git clone
$ python install

Alternatively, you can install it with pip:

$ pip install pyMSA


An example of running all the included scores is located in the example folder.

Terminal session


Active development team


This project is licensed under the terms of the MIT - see the LICENSE file for details.

Project details

Download files

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

Source Distribution

pyMSA-0.8.1.tar.gz (10.5 kB view hashes)

Uploaded Source

Supported by

AWS AWS Cloud computing and Security Sponsor Datadog Datadog Monitoring Fastly Fastly CDN Google Google Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page