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381 bytes added
, 21:37, 13 December 2010
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| ### Remove the pseudo-autosomal part (for build hg18: chrX:1-2709520 and chrX:154584238-154913754 ; for build hg19 chrX:1-2709520 and chrX:154584238-154913754 ) | | ### Remove the pseudo-autosomal part (for build hg18: chrX:1-2709520 and chrX:154584238-154913754 ; for build hg19 chrX:1-2709520 and chrX:154584238-154913754 ) |
| ### Convert the pedigree file into a MaCH haplotype file (missing genotypes should be encoded as: "0" or "." or "N" ) | | ### Convert the pedigree file into a MaCH haplotype file (missing genotypes should be encoded as: "0" or "." or "N" ) |
| + | |
| + | '''<Example of a pedigree file >''' |
| + | FAM1003 ID1234 0 0 M A/0 A/0 C/0 |
| + | FAM1004 ID5678 0 0 M 0/0 C/0 G/0 |
| + | ... |
| + | '''<End of pedigree file>''' |
| + | |
| + | |
| + | '''<Example of a phased haplotype file>''' |
| + | FAM1003->ID1234 HAPLO1 AAC |
| + | FAM1003->ID1234 HAPLO2 AAC |
| + | FAM1004->ID5678 HAPLO1 0CG |
| + | FAM1004->ID5678 HAPLO2 0CG |
| + | ... |
| + | '''<End of phased haplotype file>''' |
| + | |
| ### Impute using minimac as described above. | | ### Impute using minimac as described above. |
| | | |