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, 19:27, 16 November 2012
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| ==== Chromosome X ==== | | ==== Chromosome X ==== |
− | * --xStart and --xEnd specifies the start and end of non-pseudo-autosomal regions on chromosome X. These options should be specified when --fitX is used. | + | * --xLabel should have a value of a string which specifies how variants on chromosome X are coded. The default is "X". |
| + | * --xStart and --xEnd specifies the start and end of non-pseudo-autosomal regions on chromosome X. These options should be specified when --fitX is used. |
| + | * The default for --xStart is 2699520 and default for --xEnd is 154931044, according to NCBI genome build 37. |
| + | |
| === Handling Unrelated Individuals === | | === Handling Unrelated Individuals === |
| * To let Rare-Metal-Worker handle unrelated individuals, we just have to code the individuals as unrelated in PED file, or each individual belongs to a unique family. Then Rare-Metal-Worker will take care of the rest. | | * To let Rare-Metal-Worker handle unrelated individuals, we just have to code the individuals as unrelated in PED file, or each individual belongs to a unique family. Then Rare-Metal-Worker will take care of the rest. |