dat30: dat30 data set adapted from multic R package
In solarius: An R Interface to SOLAR

Description Format Details Source Examples

29 first families were selected from the complete data set of 12000 individuals. For a resulted subset of 174 individuals, a hundred of synthetic SNPs were randomly generated. Annotation information also was generated, mainly in order to plot the association results with Manhattan plot.

(Phenotypes) A data frame dat30 with 174 rows and 10 variables:

famid: Family ID (29 unique ids).
id: Individual ID.
fa: Father ID.
mo: Mother ID.
sex: Individual gender (1 - male, 2 - female).
affect: Affected status (1 - unaffected, 2 - affected).
class: Class label.
trait1: Simulated phenotype 1.
trait2: Simulated phenotype 2.
age: Age.

(Genotypes as covariates) A matrix genocovdat30 with 174 rows and 100 columns. Row names are IDs of individuals, column names are names of SNPs.

(Annotation) A data frame mapdat30 with 100 rows and 4 variables:

SNP: SNP name.
chr: Chromosome.
pos: Position in bp.
gene: Gene.

Two simulated phenotypes possess a high genetic correlation.

https://cran.r-project.org/package=multic

data(dat30)

str(dat30)

plotPed(dat30, 2) # plot the pedigree tree for family #2

## Not run: 
kin2 <- solarKinship2(dat30)
plotKinship2(kin2)
plotKinship2(kin2[1:30, 1:30])


## End(Not run)
str(genocovdat30)

genocovdat30[1:5, 1:5]
str(mapdat30)

head(mapdat30)