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cohortId | Unique cohort identifier within the study. | |
sampleCount | Count of samples with non-missing genotypes in this variant from the cohort. | |
fileCount | Count of files with samples from the cohort that reported this variant. | |
alleleCount | Total number of alleles in called genotypeCounters. It does not include missing alleles. | |
refAlleleCount | Number of reference alleles found in this variant. | |
refAlleleFreq | Reference allele frequency calculated from refAlleleCount and alleleCount, in the range [0,1] | |
altAlleleCount | Number of main alternate alleles found in this variants. It does not include secondary alternates. | |
altAlleleFreq | Alternate allele frequency calculated from altAlleleCount and alleleCount, in the range [0,1] | |
missingAlleleCount | Number of missing alleles. | |
missingGenotypeCount | Number of genotypes with all alleles missing (e.g. ./.). It does not count partially missing genotypes like "./0" or "./1". | |
genotypeCount | Number of occurrences for each genotype. | |
genotypeFreq | Genotype frequency for each genotype found calculated from the genotypeCount and samplesCount, in the range [0,1] | |
filterCount | The number of occurrences for each FILTER value in files from samples in this cohort reporting this variant. | |
filterFreq | Frequency of each filter calculated from the filterCount and filesCount, in the range [0,1] | |
qualityValuesCount qualityCount | The number of files from samples in this cohort reporting this variant with valid QUAL values. | |
qualityAvg | The average Quality value for files with valid QUAL values from samples in this cohort reporting this variant. | |
maf | Minor allele frequency. Frequency of the less common allele between the reference and the main alternate alleles. | |
mgf | Minor genotype frequency. Frequency of the less common genotype seen in this variant. | |
mafAllele | Allele with minor frequency. | |
mgfGenotype | Genotype with minor frequency. |
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