I want to identify the haplotypes which are likely under selection within a rough area of the human genome that I have prior evidence that a selective sweep has occurred.

I've found HapFinder which seems to do what I need, except that it is quite old now, requires some file conversion to different formats and may not scale well to the 100K+ samples I have to analyse.

Is there a more up to date piece of software which can explicitly identify long haplotypes in candidate regions under selection?