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Explanation of Options
Explanation of Options
--shotgun: Standard VCF 4.0 file LINK --pedfile: Pedigree file in MERLIN format LINK
--shotgun: Standard [http://www.1000genomes.org/node/101 VCF file 4.0] --pedfile: Pedigree file in [http://www.sph.umich.edu/csg/abecasis/Merlin/tour/input_files.html MERLIN format]
--randomPhase The initial haplotypes are inferred from the single marker
--randomPhase The initial haplotypes are inferred from the single marker
--inputPhased The initial haplotypes are directly from input VCF file
--inputPhased The initial haplotypes are directly from input VCF file
