GWA-type data on small region

srdta {GenABEL}R Documentation

GWA-type data on small region

Description

srdta contains gwaa.data object with results on a small region of about 2.5 Mb. 833 SNPs are typed on 2500 people. NA rate is 95%. Sex, age, two quantitative (qt1 and qt2) and one binary (bt) traits are available for analysis. Run demo(srdta) and check tut-srdta.pdf to see examples of work with this data set. Original data files used for this set are located at YOUR\_R\_LIB\_LOCATION/exdata/srphenos.dat (pehnotypes), srgenos.dat (human-readable genotypes) and srgenos.raw (genotypes in internal format)

Usage

data(srdta)

Format

Standard object of class gwaa.data-class

Examples


## Not run: 
demo(srdta)

## End(Not run)

# load and work with srdta
data(srdta)
mc <- check.marker(data=srdta@gtdata[,1:100],redundant="all",maf=0.01,minconcordance=0.9,fdr=.1,ibs.mrk=0)
plot(mc)
check.trait(names(srdta@phdata),srdta)

[Package GenABEL version 1.6-7 Index]