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<sample.ped> <br>
<sample.ped> <br>
fam1 indiv1 0 0 1 0/0 2/3 ./. <br>
fam1 indiv1 0 0 1 0/0 2/3 ./. <br>
fam2 indiv2 0 0 2 1/2 2/2 1/4 <br>
fam2 indiv2 0 0 2 1/2 2/2 1/4 <br>
<EOF sample.ped> <br>
<EOF sample.ped> <br>
<sample.dat><br>
<sample.dat><br>
M SNP1<br>
M SNP1<br>
M SNP2<br>
M SNP2<br>
M SNP3<br>
M SNP3<br>
<EOF sample.dat><br>
<EOF sample.dat><br>
External (e.g., HapMap) data (snp and haplotype files) are optional.
External (e.g., HapMap) data (snp and haplotype files) are optional.
Mach 1.0 accepts two different formats: MACH format or HapMap format.
Mach 1.0 accepts two different formats: MACH format or HapMap format.
MACH format HapMap SNP File
MACH format HapMap SNP File
...
...
HapMap format HapMap SNP File
HapMap format files can be downloaded from:
http://hapmap.org/downloads/phasing/2006-07_phaseII/phased/
or
http://hapmap.org/downloads/phasing/2007-08_rel22/phased/
When using HapMap format files, turn on --hapmapFormat option.
HapMap format SNP File
-----------------------------
-----------------------------
legend file downloaded from HapMap website
legend file downloaded from HapMap website
HapMap format HapMap Haplotype File
HapMap format Haplotype File
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-----------------------------------
phase file downloaded from HapMap website
phase file downloaded from HapMap website
