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, 19:05, 16 February 2015
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| rarefy --ped your.ped --dat your.dat --traitDecreasing --prefix your.output.prefix | | rarefy --ped your.ped --dat your.dat --traitDecreasing --prefix your.output.prefix |
| *To prioritize individuals likely to be carriers of either trait-decreasing or trait-decreasing rare variants: | | *To prioritize individuals likely to be carriers of either trait-decreasing or trait-decreasing rare variants: |
− | rarefy --ped your.ped --dat your.dat --traitDecreasing --traitDecreasing --prefix your.output.prefix | + | rarefy --ped your.ped --dat your.dat --traitIncreasing --traitDecreasing --prefix your.output.prefix |
| *To analyze families using MCMC method in 3 chains and 50000000 iterations: | | *To analyze families using MCMC method in 3 chains and 50000000 iterations: |
− | rarefy --ped your.ped --dat your.dat --traitDecreasing --traitDecreasing --MCMC --chains 3 --iterations 50000000 --prefix your.output.prefix | + | rarefy --ped your.ped --dat your.dat --traitIncreasing --traitDecreasing --MCMC --chains 3 --iterations 50000000 --prefix your.output.prefix |
| *To inverse Normalize the phenotype before analysis: | | *To inverse Normalize the phenotype before analysis: |
− | rarefy --ped your.ped --dat your.dat --traitDecreasing --traitDecreasing --inverseNormal --prefix your.output.prefix | + | rarefy --ped your.ped --dat your.dat --traitIncreasing --traitDecreasing --inverseNormal --prefix your.output.prefix |
| *To analyze only a subset of families in the sample: | | *To analyze only a subset of families in the sample: |
− | rarefy --ped your.ped --dat your.dat --traitDecreasing --traitDecreasing --famList your.file.with.famID --prefix your.output.prefix | + | rarefy --ped your.ped --dat your.dat --traitIncreasing --traitDecreasing --famList your.file.with.famID --prefix your.output.prefix |
| *To analyze only one family: | | *To analyze only one family: |
− | rarefy --ped your.ped --dat your.dat --traitDecreasing --traitDecreasing --famID fam123 --prefix your.output.prefix | + | rarefy --ped your.ped --dat your.dat --traitIncreasing --traitDecreasing --famID fam123 --prefix your.output.prefix |