cf {gap.datasets}

Cystic fibrosis data

Description

This data set contains a case-control indicator and 23 SNPs.

The inter-marker distances (Morgan) are as follows

0.000090, 0.000158, 0.005000, 0.000100, 0.000200, 0.000150, 0.000250, 0.000200, 0.000050, 0.000350, 0.000300, 0.000250, 0.000350, 0.000350, 0.000800, 0.000100, 0.000200, 0.000150, 0.000550, 0.006000, 0.000700, 0.001000

Usage

data(cf)

Format

A data frame containing 186 rows and 24 columns

Note

This can be used as an example of converting PL-EM to matrix format,

cfdata <- vector("numeric")
cfname <- vector("character")
for (i in 2:dim(cf)[2])
{
    tmp <- plem2m(cf[,i])
    a1 <- tmp[[1]]
    a2 <- tmp[[2]]
    cfdata <- cbind(cfdata,a1,a2)
    a1name <- paste("loc",i-1,".a1",sep="")
    a2name <- paste("loc",i-1,".a2",sep="")
    cfname <- cbind(cfname,a1name,a2name)
}
cfdata <- as.data.frame(cfdata)
names(cfdata) <- cfname

Source

Liu JS, Sabatti C, Teng J, Keats BJB, Risch N (2001). Bayesian Analysis of Haplotypes for Linkage Disequilibrium Mapping. Genome Research 11:1716-1724