2,004
edits
Changes
From Genome Analysis Wiki
Jump to navigationJump to searchno edit summary
LDL mean= -0.00, variance= 1.00, heritability= 34.30
LDL mean= -0.00, variance= 1.00, heritability= 34.30
CHR POS REF_ALLELE ALT_ALLELE INFORMATIVE_N FOUNDER_AF ALL_AF INFORMATIVE_AC STAT ALT_ALLELE_EFFSIZE PVALUE
CHR POS REF_ALLELE ALT_ALLELE INFORMATIVE_N FOUNDER_AF ALL_AF INFORMATIVE_AC STAT ALT_ALLELE_EFFSIZE PVALUE
chr1 762320 G A 6103 0.0038225 0.0038225 45 4.73428 0.0949001 0.502675
chr1 762320 G A 6103 0.0038225 0.0038225 45 4.73428 0.0949001 0.502675
chr1 878744 C G 6103 0.00667334 0.00667334 80 -19.5138 -0.220432 0.0380796
chr1 878744 C G 6103 0.00667334 0.00667334 80 -19.5138 -0.220432 0.0380796
chr1 879381 G A 6103 8.31117e-05 8.31117e-05 1 -0.831691 -0.61887 0.473108
chr1 879381 G A 6103 8.31117e-05 8.31117e-05 1 -0.831691 -0.61887 0.473108
* pvalues from the above output are from the family-based single variant score test.
* prefix.traitName.singlevar.cov.txt contains the LD matrix among a variant and the adjacent markers within a prefixed-sized window. The default window size is 1MB. It has the following format:
CHR POS VAR_POS_IN_WINDOW LD_MATRIX
chr1 762320 762320,865628,865665,878744,879381,1560000 0.0359084,-0.000242112,-0.00125797,-0.000993422,-0.000344509,-0.00017077,
chr1 865628 865628,865665,878744,879381,1560000,1867659 0.419804,-0.0103663,-0.00635265,0.0594056,0.0534505,-0.00462183,
chr1 878744 878744,879381,1560000,1867659,1877659 0.000404537,-0.000235215,-1.4455e-05,-8.69137e-06,-3.1027e-05,
== Examples ==
== Examples ==
