An intercross with misplaced markers
Simulated data for an intercross with some markers out of order.
data(badorder)
An object of class cross. See read.cross
for details.
There are 250 F2 individuals typed at a total of 36 markers on four chromosomes. The data were simulated with QTLs at the center of chromosomes 1 and 3.
The order of several markers on chromosome 1 is incorrect. Markers on chromosomes 2 and 3 are switched.
Karl W Broman, broman@wisc.edu
data(badorder) # estimate recombination fractions badorder <- est.rf(badorder) plotRF(badorder) # re-estimate map newmap <- est.map(badorder) plotMap(badorder, newmap) # assess marker order on chr 1 rip3 <- ripple(badorder, chr=1, window=3) summary(rip3)
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