cohortId | Cohort identifier |
samplesCount | |
filesCount | |
alleleCount | Total number of alleles in called genotypeCounters. Does not include missing alleles |
refAlleleCount | Number of reference alleles found in this variant |
altAlleleCount | Number of main alternate alleles found in this variants. Does not include secondary alternates |
refAlleleFreq | Reference allele frequency calculated from refAlleleCount and alleleCount, in the range (0,1) |
altAlleleFreq | Alternate allele frequency calculated from altAlleleCount and alleleCount, in the range (0,1) |
missingAlleleCount | Number of missing alleles |
missingGenotypeCount | Number of missing genotypeCounters |
genotypeCount | Count for each genotype found |
genotypeFreq | Genotype frequency for each genotype found |
filterCount | Number of samples with non-missing genotype with that specific filter |
filterFreq | Frequency of each filter. Count divided by the number of non-missing samples |
qualityAvg | The weighted average of the Quality, computed only for non-missing samples |
qualityValuesCount | |
maf | Minor allele frequency |
mgf | Minor genotype frequency |
mafAllele | Allele with minor frequency |
mgfGenotype | Genotype with minor frequency |