2,004
edits
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* An example log file is in the following:
* An example log file is in the following:
Summary statistics for trait LDL have been saved in LDL.singlevar.score.txt.
Summary statistics for trait LDL have been saved in LDL.singlevar.score.txt.
LD matrices for trait LDL have been saved in LDL.singlevar.cov.txt.
LD matrices for trait LDL have been saved in LDL.singlevar.cov.txt.
Rare-Metal-Worker handled all individuals as related.
Rare-Metal-Worker handled all individuals as related.
The following parameters are in effect:
The following parameters are in effect:
Input Files:
Input Files:
============================
============================
--ped [APOE.ped]
--ped [APOE.ped]
--dat [APOE.dat]
--dat [APOE.dat]
--vcf []
--vcf []
Output Files:
Output Files:
============================
============================
--prefix []
--prefix []
--LDwindow [1000000]
--LDwindow [1000000]
VC Options:
VC Options:
============================
============================
--vcShared [false]
--vcShared [false]
--vcX [false]
--vcX [false]
--useCovariates [false]
--useCovariates [false]
Trait Options:
Trait Options:
============================
============================
--makeResiduals [true]
--makeResiduals [true]
--inverseNormal [true]
--inverseNormal [true]
--traitName [LDL]
--traitName [LDL]
Kinship Source:
Kinship Source:
============================
============================
--kinPedigree [true]
--kinPedigree [true]
--kinGeno [false]
--kinGeno [false]
--kinFile []
--kinFile []
--kinSave [false]
--kinSave [false]
== Examples ==
== Examples ==
