Convert a PSL alignment data.frame into a minimal 1:1 alignment file where each query has at most one target
a psl data.frame; see import.psl
data.frame with 1 row per query containing the
best alignment for each query.
If there's only one alignment for a query, then no change
If there's > 1 alignment for a query, work out the
pslScore's for each alignment, and choose the best one.
If there is a tie for the best alignment, then the one
closest to the top of the
data.frame is chosen. In
the case of a tie, warning messages are displaying
indicating to the user whether the ties were all on the
same chromosome or not.
Mark Cowley, 12 April 2006
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