Package picard.arrays
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Class Summary Class Description CollectArraysVariantCallingMetrics Collects summary and per-sample metrics about variant calls in a VCF file.CollectArraysVariantCallingMetrics.ArraysControlCodesSummaryMetrics CollectArraysVariantCallingMetrics.ArraysVariantCallingDetailMetrics CollectArraysVariantCallingMetrics.ArraysVariantCallingSummaryMetrics CombineGenotypingArrayVcfs A simple program to combine multiple genotyping array VCFs into one VCF The input VCFs must have the same sequence dictionary and same list of variant loci.CreateVerifyIDIntensityContaminationMetricsFile A simple program to create a standard picard metrics file from the output of VerifyIDIntensityGtcToVcf Class to convert an Illumina GTC file into a VCF file.MergePedIntoVcf Class to take genotype calls from a ped file output from zCall and merge them into a vcf from autocall.VcfToAdpc A simple program to convert a Genotyping Arrays VCF to an ADPC file (Illumina intensity data file).VerifyIDIntensityContaminationMetrics