Quality control analysis of 1000 Genomes Project Omni2.5 genotypes
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sampleTable.txt is a tab-delimited text file.  There is one line for each of
the 2318 genotyped samples.  The fields are as follows:

Ped = pedigree ID
ID = sample ID in the 1000 Genomes data
Population = population code
Continent = continent code
PedSex = sex, as provided by 1000 Genomes (1=male, 2=female)
Xhomoz = proportion of homozygous genotypes for X chromosome markers
YcallRate = call rate for markers on the Y chromosome
CallRate = call rate for all markers across the genome
AutoHet = proportion of heterozygous markers on the autosomes
CallErr = number of heterozygous haploid genotype calls or Y chromosome calls for females (based on InferredSex)
InferredSex = sex inferred by Xhomoz and YcallRate (1=male, 2=female, 0=unknown)
MendErr = number of observed errors in Mendelian transmission from a parent to ID
PC1 = first principal component, from an analysis of all independent samples (NA = sample not analyzed)
PC2 = second principal component
PC3 = third principal component
Omni1738 = is the sample part of the 1738 independent individuals with consistent ethnicity and unambiguous sex inference?  1 = yes, 0 = no

Last modified 21 September 2016.