dataRaw: dataRaw - a data frame containing the pedigree, phenotype and...

In GESE: Gene-Based Segregation Test

Description

A data frame that can be created from the .raw formatted filed generated by PLINK.

Usage

data("dataRaw")

Format

A data frame with 198 observations on the following 26 variables.

FID

Family iD

IID

Individual ID

PAT

Father ID

MAT

Mother ID

SEX

sex

PHENOTYPE

Affection status

X1

Genotype for variant 1

X2

Genotype for variant 2

X3

Genotype for variant 3

X4

Genotype for variant 4

X5

Genotype for variant 5

X6

Genotype for variant 6

X7

Genotype for variant 7

X8

Genotype for variant 8

X9

Genotype for variant 9

X10

Genotype for variant 10

Details

The number of rows equal the number of subjects in the data and the number of columns equas the number of markers M + 6. The first six columns with specific column names include: the Family ID (FID), Individual ID (IID), father ID(PAT), mother ID (MAT), sex (SEX) and affection status (PHENOTYPE). The rest of the columns containing the genotypes for the variants listed in the coreesponding mapInfo file. It is also important to make sure that the recoding is with respect to the minor allele in the population. The affection status of this file will be used as the phenotype.

Examples

data(dataRaw)

Example output

Loading required package: kinship2
Loading required package: Matrix
Loading required package: quadprog

GESE documentation built on May 2, 2019, 3:59 a.m.