Generates knockoffs of HMMs and genetic data.
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:
- 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.
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