## htsjdk.samtools.metrics.StringHeader
# GenotypeConcordance TRUTH_VCF=in/CEUTrio-snps.vcf CALL_VCF=in/CEUTrio-snps.vcf OUTPUT=picard/concordance TRUTH_SAMPLE=NA12878 CALL_SAMPLE=NA12891    OUTPUT_VCF=false INTERSECT_INTERVALS=true MIN_GQ=0 MIN_DP=0 OUTPUT_ALL_ROWS=false USE_VCF_INDEX=false MISSING_SITES_HOM_REF=false IGNORE_FILTER_STATUS=false VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false USE_JDK_DEFLATER=false USE_JDK_INFLATER=false
## htsjdk.samtools.metrics.StringHeader
# Started on: Sat Oct 24 21:43:46 HST 2026

## METRICS CLASS	picard.vcf.GenotypeConcordanceSummaryMetrics
VARIANT_TYPE	TRUTH_SAMPLE	CALL_SAMPLE	HET_SENSITIVITY	HET_PPV	HET_SPECIFICITY	HOMVAR_SENSITIVITY	HOMVAR_PPV	HOMVAR_SPECIFICITY	VAR_SENSITIVITY	VAR_PPV	VAR_SPECIFICITY	GENOTYPE_CONCORDANCE	NON_REF_GENOTYPE_CONCORDANCE
SNP	NA12878	NA12891	0.711538	0.686869	?	0.766234	0.730337	?	0.734807	0.707447	0.668675	0.576132	0.469072
INDEL	NA12878	NA12891	?	?	?	?	?	?	?	?	?	?	?


