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You can eliminate multiple markers in the interactive loop. You should
be aware that the order marker elimination is important. If all
the markers to be eliminated are on separate chromosomes, the order is
unimportant. If two markers from the same chromosome are to be eliminated,
order should be to eliminate the highest numbered marker.
The same concept holds for
traits: eliminate them in the order of highest to lowest.
Do not try to eliminate any markers or traits AND
do a bootstrap, permutation or simulation of missing markers in the same run.