Genotypes Loader: Available Documentation

This module provides a drush command to load genotypic data from a variety of file formats. Data is saved in GMOD Chado in accordance with ND Genotypes including use of the genotype_call table.

Note

For further support of genotypic data such as variant/marker pages and a variant by germplasm matrix, see ND Genotypes.

Contents:

• Installation
  • Dependencies
• Configuration
  • Controlled Vocabulary Terms
  • Database Write Options
• Usage
  • Drush Command
  • Example Usage
• File Formats
  • Genotypes File
  • Samples File
• Demonstration
  • Step 1: Preparation
  • Step 2: Prepare the Files
  • Step 3: Import genotypic data
• Data Storage
  • Chado Schema and Extensions