== COE == 

[How to compile]
  0) This program is running in Linux system. The following packages may be required:
     boost-1.35, cmake, g++-4
  1) Get into the COE directory, and run "cmake .".
  2) then run "make"

[Usage] 
  ./coe geno_fn pheno_fn #individuals #SNPs #permutations FWER_threshold

[Options Details]
geno_fn: 	the genotype data file name (the rows are SNPs, the columns are individuals)
pheno_fn: 	the phenotype data file name
#individual: 	the number of individuals in the data
#SNPs: 		the number of SNPs in the data
#permutations:	the number of permutations used in the significant test
#FWER_threshold:the threshold of Family-wise Error Rate Control

[Example]
  ./coe ../data/geno.txt ../data/pheno.txt 70 1000 100 0.2

[Ouput Description]
  Pruning ratio: ...          <---- the pruning ratio of the process
  Threshold:...               <---- the threshold COE uses to prune
  Runtime: ...                <---- total runtime
  --------------

  --------- significant SNP-pairs --------        <---- the list of significant SNP-pairs
  X31
  1101001111110011100110110001010010001110001011100010010010001010011001
  X168
  1101000011100001100101110000000001010101100100001100001100010100100110
  chi_score: 20.3697
  ---------
  ......
  ---------------------------


Ver 0.0.5
@All Rights Reserved.
