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134 bytes added
, 06:51, 7 October 2010
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| Target snps (from the pre-phasing step) | | Target snps (from the pre-phasing step) |
| --rounds R | | --rounds R |
− | how many iterations should be run to estimate the model parameters: (i) error rate for each marker (*.erate) and (ii) crossover rates (*.rec) for each interval. | + | how many rounds should be run to optimize the model parameters: (i) error rate for each marker (*.erate) and (ii) crossover rates (*.rec) for each interval. |
| + | --states S |
| + | how many haplotypes to use for parameter optimization |
| + | --em |
| + | use an e-m algorithm, instead of mcmc, for parameter optimization |
| --rec file.rec | | --rec file.rec |
| use crossover rates from this file | | use crossover rates from this file |