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pybrops 1.0.2 documentation

  • Getting Started
  • Fundamentals
  • Standard Usage
  • Advanced Usage
  • Examples
    • Contributing
    • Frequently Asked Questions
    • API reference
  • Getting Started
  • Fundamentals
  • Standard Usage
  • Advanced Usage
  • Examples
    • Contributing
    • Frequently Asked Questions
    • API reference

Section Navigation

Core Infrastructure Usage:

  • Random Number Generation

Population Genetics Modules Usage:

  • Genetic Maps
  • Genetic Map Functions
  • Genotype Matrices
  • Phased Genotype Matrices
  • Breeding Value Matrices
  • Coancestry Matrices

Optimization Modules Usage:

  • Optimization Problems
  • Optimization Solutions
  • Optimization Algorithms

Genomic Modeling Modules Usage:

  • Genomic Models
  • Variance Matrices

Breeding Protocol Modules Usage:

  • Genotyping Protocols
  • Phenotyping Protocols
  • Breeding Value Estimation Protocols
  • Mating Protocols
  • Selection Protocols

Breeding Operator Modules Usage:

  • Initialization Operators
  • Parental Selection Operators
  • Mating Operators
  • Evaluation Operators
  • Survivor Selection Operators
  • Logbooks

Breeding Program Simulation Examples:

  • Examples
    • Bi-Objective GEBV Selection
    • Bi-Objective wGEBV Selection
    • Tri-Objective Optimal Contribution Selection
    • Tri-Objective Optimal Contribution Selection with Real-World Wheat Data
    • Germplasm panel reduction
    • Single-Trait Phenotypic Selection
    • Constrained Single-Trait Phenotypic Selection
    • Bi-Trait Genotypic Selection
    • Constrained Bi-Trait Phenotypic Selection
  • Standard PyBrOpS Usage
  • Examples

Examples#

Pareto Frontier Visualization Examples#

Pre-built selection strategies

  • Bi-Objective GEBV Selection
  • Bi-Objective wGEBV Selection
  • Tri-Objective Optimal Contribution Selection
  • Tri-Objective Optimal Contribution Selection with Real-World Wheat Data

Custom-built selection strategies

  • Germplasm panel reduction

Breeding Program Simulation Examples#

Simulation of Single-trait Breeding Programs

  • Single-Trait Phenotypic Selection
  • Constrained Single-Trait Phenotypic Selection

Simulation of Multi-trait Breeding Programs

  • Bi-Trait Genotypic Selection
  • Constrained Bi-Trait Phenotypic Selection

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Logbooks

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Bi-Objective GEBV Selection Pareto Frontier Visualization

On this page
  • Pareto Frontier Visualization Examples
  • Breeding Program Simulation Examples

© Copyright 2024, Robert Z. Shrote.

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