VariScan, could be used for linux, Mac and Win.
Vilella, A, J., Blanco-Garcia, A., Hutter, S. and Rozas, J. (2005). VariScan: Analysis of evolutionary patterns from large-scale DNA sequence polymorphism data.Bioinformatics 21: 2791-2793.
Hutter, S., Vilella, A, J. and Rozas, J. (2006). Genome-wide DNA polymorphism analyses using VariScan. BMC Bioinformatics 7: 409.
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