penetrance (version 0.1.0)

transformDF: Transform Data Frame

Description

This function transforms a data frame from the standard format used in PanelPRO into the required format which conforms to the requirements of penetrance (and clipp).

Usage

transformDF(df)

Value

A data frame in the format required for clipp with the following columns:

individual

ID of the individual

isProband

Indicator if the individual is a proband

family

Family ID

mother

Mother's ID

father

Father's ID

aff

Affection status

sex

Sex (2 for female, 1 for male)

age

Age at diagnosis or current age

geno

Genotype information

Arguments

df

The input data frame in the usual PanelPRO format.

Examples

# Create example data frame
df <- data.frame(
  ID = 1:2,
  PedigreeID = c(1,1),
  Sex = c(0,1),
  MotherID = c(NA,1),
  FatherID = c(NA,NA),
  isProband = c(1,0),
  CurAge = c(45,20),
  isAff = c(1,0),
  Age = c(40,NA),
  Geno = c(1,0)
)

# Transform the data frame
transformed_df <- transformDF(df)