## htsjdk.samtools.metrics.StringHeader
# MarkDuplicates --INPUT DE-IgG_R1.target.markdup.sorted.bam --OUTPUT DE-IgG_R1.target.dedup.bam --METRICS_FILE DE-IgG_R1.target.dedup.MarkDuplicates.metrics.txt --REMOVE_DUPLICATES true --ASSUME_SORT_ORDER coordinate --TMP_DIR tmp --VALIDATION_STRINGENCY LENIENT --REFERENCE_SEQUENCE GCA_000001405.15_GRCh38_no_alt_plus_hs38d1_analysis_set.fna --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 --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --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 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --GA4GH_CLIENT_SECRETS client_secrets.json --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
## htsjdk.samtools.metrics.StringHeader
# Started on: Thu Jun 15 14:48:59 GMT 2023

## 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
Unknown Library	0	7395273	0	0	0	120857	1062	0.016342	225728208

## HISTOGRAM	java.lang.Double
BIN	CoverageMult	all_sets	optical_sets	non_optical_sets
1.0	1.000141	7155270	0	7156283
2.0	1.968047	117582	1060	116618
3.0	2.904756	1487	1	1438
4.0	3.811274	50	0	50
5.0	4.688574	15	0	15
6.0	5.537598	4	0	4
7.0	6.359257	0	0	0
8.0	7.154433	4	0	4
9.0	7.92398	1	0	1
10.0	8.668724	1	0	1
11.0	9.389464	1	0	1
12.0	10.086973	0	0	0
13.0	10.762001	0	0	0
14.0	11.415273	0	0	0
15.0	12.047488	0	0	0
16.0	12.659327	0	0	0
17.0	13.251446	1	0	1
18.0	13.82448	0	0	0
19.0	14.379044	0	0	0
20.0	14.915735	0	0	0
21.0	15.435127	0	0	0
22.0	15.937779	0	0	0
23.0	16.42423	0	0	0
24.0	16.895002	0	0	0
25.0	17.350601	0	0	0
26.0	17.791515	0	0	0
27.0	18.218218	0	0	0
28.0	18.631168	0	0	0
29.0	19.030808	0	0	0
30.0	19.417568	0	0	0
31.0	19.791862	0	0	0
32.0	20.154092	0	0	0
33.0	20.504647	0	0	0
34.0	20.843903	0	0	0
35.0	21.172224	0	0	0
36.0	21.489964	0	0	0
37.0	21.797462	0	0	0
38.0	22.09505	0	0	0
39.0	22.383046	0	0	0
40.0	22.661759	0	0	0
41.0	22.93149	0	0	0
42.0	23.192526	0	0	0
43.0	23.44515	0	0	0
44.0	23.68963	0	0	0
45.0	23.926232	0	0	0
46.0	24.155207	0	0	0
47.0	24.376802	0	0	0
48.0	24.591255	0	0	0
49.0	24.798795	0	0	0
50.0	24.999647	0	0	0
51.0	25.194025	0	0	0
52.0	25.382138	0	0	0
53.0	25.564187	0	0	0
54.0	25.74037	0	0	0
55.0	25.910873	0	0	0
56.0	26.075882	0	0	0
57.0	26.235571	0	0	0
58.0	26.390114	0	0	0
59.0	26.539676	0	0	0
60.0	26.684417	0	0	0
61.0	26.824493	0	0	0
62.0	26.960055	0	0	0
63.0	27.091247	0	0	0
64.0	27.21821	0	0	0
65.0	27.341082	0	0	0
66.0	27.459993	0	0	0
67.0	27.575071	0	0	0
68.0	27.686441	0	0	0
69.0	27.79422	0	0	0
70.0	27.898527	0	0	0
71.0	27.999471	0	0	0
72.0	28.097161	0	0	0
73.0	28.191703	0	0	0
74.0	28.283198	0	0	0
75.0	28.371744	0	0	0
76.0	28.457436	0	0	0
77.0	28.540366	0	0	0
78.0	28.620623	0	0	0
79.0	28.698293	0	0	0
80.0	28.77346	0	0	0
81.0	28.846204	0	0	0
82.0	28.916603	0	0	0
83.0	28.984734	0	0	0
84.0	29.050669	0	0	0
85.0	29.114478	0	0	0
86.0	29.176231	0	0	0
87.0	29.235993	0	0	0
88.0	29.29383	0	0	0
89.0	29.349802	0	0	0
90.0	29.40397	0	0	0
91.0	29.456392	0	0	0
92.0	29.507125	0	0	0
93.0	29.556222	0	0	0
94.0	29.603737	0	0	0
95.0	29.649721	0	0	0
96.0	29.694222	0	0	0
97.0	29.737289	0	0	0
98.0	29.778968	0	0	0
99.0	29.819304	0	0	0
100.0	29.858339	0	0	0