@----------------------------------------------------------@ | PLINK! | v1.07 | 10/Aug/2009 | |----------------------------------------------------------| | (C) 2009 Shaun Purcell, GNU General Public License, v2 | |----------------------------------------------------------| | For documentation, citation & bug-report instructions: | | http://pngu.mgh.harvard.edu/purcell/plink/ | @----------------------------------------------------------@ Skipping web check... [ --noweb ] Writing this text to log file [ plink.log ] Analysis started: Wed Jan 21 20:56:48 2015 Options in effect: --bfile balkan_geno003 --noweb --missing Reading map (extended format) from [ balkan_geno003.bim ] 555247 markers to be included from [ balkan_geno003.bim ] Reading pedigree information from [ balkan_geno003.fam ] 70 individuals read from [ balkan_geno003.fam ] 0 individuals with nonmissing phenotypes Assuming a disease phenotype (1=unaff, 2=aff, 0=miss) Missing phenotype value is also -9 0 cases, 0 controls and 70 missing 31 males, 39 females, and 0 of unspecified sex Reading genotype bitfile from [ balkan_geno003.bed ] Detected that binary PED file is v1.00 SNP-major mode Before frequency and genotyping pruning, there are 555247 SNPs 70 founders and 0 non-founders found 19 heterozygous haploid genotypes; set to missing Writing list of heterozygous haploid genotypes to [ plink.hh ] Writing individual missingness information to [ plink.imiss ] Writing locus missingness information to [ plink.lmiss ] Total genotyping rate in remaining individuals is 0.999523 0 SNPs failed missingness test ( GENO > 1 ) 0 SNPs failed frequency test ( MAF < 0 ) After frequency and genotyping pruning, there are 555247 SNPs After filtering, 0 cases, 0 controls and 70 missing After filtering, 31 males, 39 females, and 0 of unspecified sex Analysis finished: Wed Jan 21 20:57:02 2015