Tertiary Analysis

Perform population-scale statistical analyses of genetic variants.

• The Pipe Transformer for Parallelizing Command-Line Bioinformatics Tools
  • Usage
  • Integrating with bioinformatics tools
  • Options
  • Cleanup
  • Examples
• Spark as a Workflow Orchestrator to Parallelize Command-Line Bioinformatics Tools
  • When to use workflow orchestrator vs pipe transformer architecture
  • Example
• Python Statistics Libraries
  • pandas example notebook
• GloWGR: Whole Genome Regression
  • Performance
  • Overview
  • Data preparation
  • Stage 1. Genotype matrix blocking
  • Stage 2. Dimensionality reduction
  • Stage 3. Estimate phenotypic predictors
  • Proceed to GWAS
  • Troubleshooting
  • Example notebook
• GloWGR: Genome-Wide Association Study (GWAS) Regression Tests
  • Linear regression
  • Logistic regression
  • Offset