## htsjdk.samtools.metrics.StringHeader
# picard.sam.markduplicates.MarkDuplicates INPUT=[/home/rceprian/tutorial_VariantSeq/05_addreplacegroups/picardAddReplaceReadGroups/CAN5_R.bam] OUTPUT=/home/rceprian/tutorial_VariantSeq/06_MarkDuplicates/picardMarkDuplicates/CAN5_R.bam METRICS_FILE=/home/rceprian/tutorial_VariantSeq/06_MarkDuplicates/picardMarkDuplicates/CAN5_R.metrics.txt VALIDATION_STRINGENCY=LENIENT CREATE_INDEX=true    MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 SORTING_COLLECTION_SIZE_RATIO=0.25 TAG_DUPLICATE_SET_MEMBERS=false REMOVE_SEQUENCING_DUPLICATES=false TAGGING_POLICY=DontTag REMOVE_DUPLICATES=false ASSUME_SORTED=false DUPLICATE_SCORING_STRATEGY=SUM_OF_BASE_QUALITIES PROGRAM_RECORD_ID=MarkDuplicates PROGRAM_GROUP_NAME=MarkDuplicates READ_NAME_REGEX=<optimized capture of last three ':' separated fields as numeric values> OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VERBOSITY=INFO QUIET=false COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json
## htsjdk.samtools.metrics.StringHeader
# Started on: Mon Feb 21 10:31:38 CET 2022

## METRICS CLASS	picard.sam.DuplicationMetrics
LIBRARY	UNPAIRED_READS_EXAMINED	READ_PAIRS_EXAMINED	SECONDARY_OR_SUPPLEMENTARY_RDS	UNMAPPED_READS	UNPAIRED_READ_DUPLICATES	READ_PAIR_DUPLICATES	READ_PAIR_OPTICAL_DUPLICATES	PERCENT_DUPLICATION	ESTIMATED_LIBRARY_SIZE
CAN5_R	105215	50003748	3590463	131703	84106	36099269	81466	0.722013	14346577

## HISTOGRAM	java.lang.Double
BIN	VALUE
1.0	1.00018
2.0	1.030827
3.0	1.031766
4.0	1.031794
5.0	1.031795
6.0	1.031795
7.0	1.031795
8.0	1.031795
9.0	1.031795
10.0	1.031795
11.0	1.031795
12.0	1.031795
13.0	1.031795
14.0	1.031795
15.0	1.031795
16.0	1.031795
17.0	1.031795
18.0	1.031795
19.0	1.031795
20.0	1.031795
21.0	1.031795
22.0	1.031795
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24.0	1.031795
25.0	1.031795
26.0	1.031795
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29.0	1.031795
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34.0	1.031795
35.0	1.031795
36.0	1.031795
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38.0	1.031795
39.0	1.031795
40.0	1.031795
41.0	1.031795
42.0	1.031795
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85.0	1.031795
86.0	1.031795
87.0	1.031795
88.0	1.031795
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96.0	1.031795
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98.0	1.031795
99.0	1.031795
100.0	1.031795