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<br>Q: Do I have to sort the pedigree file by physical positions? <br>
<br>Q: Do I have to sort the pedigree file by physical positions? <br>
A: If you use external reference, you do not have to as long as the external reference is in correct order. **HOWEVER**, we strongly recommend sorting the pedigree files. <br><br>
A: If you use external reference, you do not have to as long as the external reference is in correct order. **HOWEVER**, we strongly recommend sorting the pedigree files. <br><br>
<br>Q: What if I specified --states R where R exceeds the maximum possible (2*number diploid individuals - 2 + number_haplotypes)? <br>
A: mach automatically resets it to maximum possible value.
== Examples ==
== Examples ==
