From Genome Analysis Wiki
Jump to navigationJump to search
84 bytes added
, 03:56, 11 September 2014
Line 85: |
Line 85: |
| == Estimating Haplotypes for Your Sample == | | == Estimating Haplotypes for Your Sample == |
| | | |
− | For the haplotyping step, you can use [[MaCH]] with the --phase command line option. As input [[MaCH]] will need [[Merlin]] format pedigree and data files. All markers should be ordered according to their physical position and alleles should be labeled on the forward strand. | + | For the haplotyping step, you can use [[MaCH]] with the --phase command line option or [[https://mathgen.stats.ox.ac.uk/genetics_software/shapeit/shapeit.html ShapeIT]. As input [[MaCH]] will need [[Merlin]] format pedigree and data files. All markers should be ordered according to their physical position and alleles should be labeled on the forward strand. |
| | | |
| === Preparing Your Data === | | === Preparing Your Data === |