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862 bytes added
, 20:13, 15 June 2014
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| FORMAT : format field labels for the genotype columns. | | FORMAT : format field labels for the genotype columns. |
| 0/0:0,9,108:9:3,0,6:10 : genotype information. | | 0/0:0,9,108:9:3,0,6:10 : genotype information. |
| + | |
| + | ===INFO field=== |
| + | |
| + | The information field are as follows: |
| + | |
| + | AC=32 : alternate allele count |
| + | AN=116 : total number of alleles |
| + | AF=0.275862 : allele frequency based on AC/AN |
| + | GC=32,20,6 : genotype counts for 0/0, 0/1, 1/1 |
| + | GN=58; : total number of genotypes |
| + | GF=0.551724,0.344828,0.103448 : genotype frequencies |
| + | NS=58 : no. of samples. |
| + | HWEAF=0.275797: Genotype likelihood based estimation of the allele frequency assuming Hardy Weinberg equilibrium. |
| + | HWEGF=0.52447,0.399466,0.0760642 : genotype frequency derived from HWEAF |
| + | MLEAF=0.27366: genotype likelihood based estimation of the genotype frequency |
| + | MLEGF=0.494275,0.464129,0.0415952 : genotype frequency derived from MLEAF |
| + | HWE_LLR=-0.453098 : log likelihood ratio of HWE test |
| + | HWE_LPVAL=-1.0755 : log p value of HWE test |
| + | HWE_DF=1 : degrees of freedom of the HWE test |
| + | FIC=-0.0718807;AB=0.6129 |
| + | |
| + | ===GENOTYPE field=== |
| | | |
| =Tools= | | =Tools= |