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fixed links to PLINK doc
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puetz committed Mar 23, 2016
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## What should my data look like?
In order to perform brute-force statistical 3-way interaction tests on SNP data with kleEpistasis you will have to provide your genotype data in PLINK binary format and a phenotype in PLINK alternate phenotype format. Please see

- [PLINK bed file documentation]("http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#bed")
- [PLINK bed file documentation](http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#bed)

and

- [PLINK phenotype file documentation]("http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#pheno")
- [PLINK phenotype file documentation](http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#pheno)

for more information regarding file formats.

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`-path [path]` Absolute or relative path to plink files in binary format (.bed .bim .fam) *without* file extension

`-pathPheno [path]` Absolute or relative path to plink alternate phenotype file *with* file extension\
`-pathPheno [path]` Absolute or relative path to plink alternate phenotype file *with* file extension

`-outPath [path]` Absolute or relative path to file where results will be written *with* file extension (.csv)

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#### Memory:
Doing a run on 5k SNPs and 1k Individuals, you need at least 20GB of RAM
####Execution time:
We were able to perform a run on 5k SNPs and 1k Individuals, on an Intel(R) Xeon(R) CPU E5-2630 v3 @ 2.40GHz combined with a NVIDIA Tesla K40 in approx. "2 hours"
#### Execution time:
We were able to perform a run on 5k SNPs and 1k Individuals, on an Intel(R) Xeon(R) CPU E5-2630 v3 @ 2.40GHz combined with a NVIDIA Tesla K40 in approx. 2 hours


### Result file:
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