## htsjdk.samtools.metrics.StringHeader
# CollectRrbsMetrics INPUT=in/input.sam METRICS_FILE_PREFIX=picard/rrbs METRIC_ACCUMULATION_LEVEL=[LIBRARY, READ_GROUP, ALL_READS, SAMPLE] REFERENCE=in/test.fasta    MINIMUM_READ_LENGTH=5 C_QUALITY_THRESHOLD=20 NEXT_BASE_QUALITY_THRESHOLD=10 MAX_MISMATCH_RATE=0.1 ASSUME_SORTED=false DO_NOT_CREATE_PLOTS=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 21:43:34 HST 2026

## METRICS CLASS	picard.analysis.RrbsSummaryMetrics
READS_ALIGNED	NON_CPG_BASES	NON_CPG_CONVERTED_BASES	PCT_NON_CPG_BASES_CONVERTED	CPG_BASES_SEEN	CPG_BASES_CONVERTED	PCT_CPG_BASES_CONVERTED	MEAN_CPG_COVERAGE	MEDIAN_CPG_COVERAGE	READS_WITH_NO_CPG	READS_IGNORED_SHORT	READS_IGNORED_MISMATCHES	SAMPLE	LIBRARY	READ_GROUP
6	18	0	0	4	0	0	4	4	2	0	0			
0	0	0	0	0	0	0	?	0	0	0	0	sample1		
6	18	0	0	4	0	0	4	4	2	0	0	unknown		
0	0	0	0	0	0	0	?	0	0	0	0	sample1		
6	18	0	0	4	0	0	4	4	2	0	0	unknown	unknown	
0	0	0	0	0	0	0	?	0	0	0	0	sample1		
6	18	0	0	4	0	0	4	4	2	0	0	unknown	unknown	unknown


