AGT {gaston} | R Documentation |
AGT data set
Description
These data have been extracted from the 1000 Genomes data.
The data set contains the genotype matrix AGT.gen
, the pedigree matrix AGT.fam
and a matrix AGT.bim
,
corresponding to 503 individuals of European populations and 361 SNPs on chromosome 1, on a ~100kb segment
containing the Angiotensinogen gene. There is also a factor AGT.pop
, which gives the population from which each
individual is drawn (CEU = Utah residents of Northern Western European ancestry, FIN = Finnish, GBR = England and Scottland,
IBS = Iberian, TSI = Toscani).
Usage
data(AGT)
Format
There are three data objects in the dataset:
AGT.gen
Genotype matrix
AGT.fam
Data frame containing all variables corresponding to a
.fam
fileAGT.bim
Data frame containing all variables corresponding to a
.bim
fileAGT.pop
Factor giving the population from which each individual is drawn
Source
The data were obtained from the 1000 Genomes project (see https://www.internationalgenome.org/).
References
McVean et al, 2012, An integrated map of genetic variation from 1,092 human genomes, Nature 491, 56-65 doi:10.1038/nature11632
Examples
data(AGT)
x <- as.bed.matrix(AGT.gen, AGT.fam, AGT.bim)
x