Simulated data for an F2 intercross
Simulated data for an F2 intercross, obtained using
sim.cross.
data(fake.f2)
An object of class cross. See read.cross
for details.
There are 200 F2 individuals typed at 94 markers, including 3 on the X chromosome. There is one quantitative phenotype, along with an indication of sex (0=female, 1=male) and the direction of the cross (pgm = paternal grandmother, 0=A, meaning the cross was (AxB)x(AxB), and 1=B, meaning the cross was (AxB)x(BxA)).
Note that the X chromosome genotypes are coded in a special way (see
read.cross). For the individuals with pgm=0, sex=0,
1=AA and 2=AB; for individuals with pgm=0, sex=1, 1=A and 2=B
(hemizygous); for individuals with pgm=1, sex=0, 1=BB and 2=AB; for
individuals with pgm=1, sex=1, 1=A and 2=B. This requires special
care!
The data were simulated using an additive model with three QTLs on chromosome 1 (at 30, 50 and 70 cM), one QTL on chromosome 13 (at 30 cM), and one QTL on the X chromosome (at 10 cM).
Karl W Broman, broman@wisc.edu
data(fake.f2) summary(fake.f2) plot(fake.f2)
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