Phenotype generation has 8 scripts that we have split into:

• Data wrangling, which has 2 scripts
  • 01_minimum_data.R
  • 02_data_preparation.R

and

• Phenotype creation, which has 6 scripts each script generates a different type of phenotype.
  • 03a_phecode_generation.R
  • 03b_data_field_phenotypes.R
  • 03c_creating_concepts.R
  • 03d_primary_care_quantitative_phenotypes.R
  • 04_formula_phenotypes.R
  • 05_composite_phenotypes.R

We now go through each of these 2 steps in turn.

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Table of contents

• Data wrangling
• Phenotype creation