Welcome to Kpop’s documentation!

Warning

Beta software

You are using a software that has not reached a stable version yet. Please beware that interfaces might change, APIs might disappear and general breakage can occur before 1.0.

If you plan to use this software for something important, please read the roadmap, and the issue tracker in Github. If you are unsure about the future of this project, please talk to the developers, or (better yet) get involved with the development of Kpop!

Kpop is a Python package concerned with population genetics analysis. It features:

• Interacts with common population genetic packages (e.g., Structure, ADMIXTURE).
• Clusterization and computation of admixture coefficients.
• Integrates machine learning methods from Sklearn and Tensorflow.
• Easy graphics.

Table of contents

• Overview
  • Command line interface
  • Kpop data formats
  • Kpop python interface
• Installation instructions
  • Troubleshoot
• Tutorial
  • Getting started
  • Basic Kpop concepts
  • Visualization
  • Statistics
  • Admixture
  • Projections
  • Clusterization
  • Classification
• Classification
  • Easy labels
  • Probabilistic classifiers
  • API docs
• Examples
  • Simulating synthetic populations
• API Reference
  • Individual
  • Population objects
  • Other utility types
  • Utility modules
• Frequently asked questions
  • Usage
• License

Indices and tables

• Index
• Module Index
• Search Page