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Revision as of 21:32, 15 June 2014
, 21:32, 15 June 2014→INFO field
The information field are as follows:
The information field are as follows:
AC=32 : alternate allele count
AC=32 : alternate allele count
AN=116 : total number of alleles
AN=116 : total number of alleles
AF=0.275862 : allele frequency based on AC/AN
AF=0.28 : allele frequency based on AC/AN
GC=32,20,6 : genotype counts for 0/0, 0/1, 1/1
GC=32,20,6 : genotype counts for 0/0, 0/1, 1/1
GN=58; : total number of genotypes
GN=58; : total number of genotypes
GF=0.55,0.34,0.10 : genotype frequencies based on GC
GF=0.55,0.34,0.10 : genotype frequencies based on GC
NS=58 : no. of samples.
NS=58 : no. of samples
HWEAF=0.28 : genotype likelihood based estimation of the allele frequency assuming Hardy Weinberg equilibrium.
HWEAF=0.28 : genotype likelihood based estimation of the allele frequency assuming Hardy Weinberg equilibrium
HWEGF=0.52,0.40,0.08 : genotype frequency derived from HWEAF
HWEGF=0.52,0.40,0.08 : genotype frequency derived from HWEAF
MLEAF=0.27: genotype likelihood based estimation of the genotype frequency
MLEAF=0.27 : genotype likelihood based estimation of the genotype frequency
MLEGF=0.49,0.46,0.04 : genotype frequency derived from MLEAF
MLEGF=0.49,0.46,0.04 : genotype frequency derived from MLEAF
HWE_LLR=-0.45 : log likelihood ratio of HWE test
HWE_LLR=-0.45 : log likelihood ratio of HWE test
HWE_LPVAL=-1.08 : log p value of HWE test
HWE_LPVAL=-1.08 : log p value of HWE test
HWE_DF=1 : degrees of freedom of the HWE test
HWE_DF=1 : degrees of freedom of the HWE test
FIC=-0.07: genotype likelihood based inbreeding coefficient
FIC=-0.07 : genotype likelihood based inbreeding coefficient
AB=0.61 : genotype likelihood based allele balance
AB=0.61 : genotype likelihood based allele balance
===GENOTYPE field===
===GENOTYPE field===
