Changes

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| <code>--sample 5</code>

| <code>--sample 5</code>

| Request the output of a set of haplotypes based on random sampling from the last Markov iteration. Instead of the best guess haplotypes (default output of MaCH) these haplotypes sets can be used for imputation.

| Request that random (but plausible) sets of haplotypes for each individual should be drawn every 5 iterations. This parameter is optional, but for some rare variant analyses, these alternative haplotypes can be very useful.

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| <code>--phase</code>  

| <code>--phase</code>