Skip to main content
Join the official 2019 Python Developers SurveyStart the survey!

Generates knockoffs of HMMs and genetic data.

Project description

SNPknock is a simple Python package for creating knockoffs of hidden Markov models and genetic data.

This package implements the algorithms described in the following papers:

Feature highlights:

  • Generate knockoffs for discrete Markov chains (DMC).
  • Generate knockoffs for hidden Markov models (HMM).
  • Generate knockoffs for genotype and haplotype data.
  • Provides a user-friendly interface for fitting an HMM to genetic data using the software fastPhase.

If you want to learn about applying SNPknock to analyze data from large genome-wide association studies, see KnockoffZoom: https://msesia.github.io/knockoffzoom

Released under the GPL-v3 license - see the file LICENSE in the source distribution.

Project details


Download files

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

Files for SNPknock, version 0.8.3
Filename, size File type Python version Upload date Hashes
Filename, size SNPknock-0.8.3.tar.gz (66.3 kB) File type Source Python version None Upload date Hashes View hashes

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 SignalFx SignalFx Supporter DigiCert DigiCert EV certificate StatusPage StatusPage Status page