## htsjdk.samtools.metrics.StringHeader
# CollectRawWgsMetrics INPUT=in/sample.bam OUTPUT=picard/raw.raw_wgs_metrics COVERAGE_CAP=250 REFERENCE_SEQUENCE=in/reference.shifted.for.crams.fasta    MINIMUM_MAPPING_QUALITY=0 MINIMUM_BASE_QUALITY=3 LOCUS_ACCUMULATION_CAP=200000 STOP_AFTER=-1 INCLUDE_BQ_HISTOGRAM=false COUNT_UNPAIRED=false SAMPLE_SIZE=10000 ALLELE_FRACTION=[0.001, 0.005, 0.01, 0.02, 0.05, 0.1, 0.2, 0.3, 0.5] USE_FAST_ALGORITHM=false READ_LENGTH=150 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 21:42:43 HST 2026

## METRICS CLASS	picard.analysis.CollectRawWgsMetrics$RawWgsMetrics
GENOME_TERRITORY	MEAN_COVERAGE	SD_COVERAGE	MEDIAN_COVERAGE	MAD_COVERAGE	PCT_EXC_ADAPTER	PCT_EXC_MAPQ	PCT_EXC_DUPE	PCT_EXC_UNPAIRED	PCT_EXC_BASEQ	PCT_EXC_OVERLAP	PCT_EXC_CAPPED	PCT_EXC_TOTAL	PCT_1X	PCT_5X	PCT_10X	PCT_15X	PCT_20X	PCT_25X	PCT_30X	PCT_40X	PCT_50X	PCT_60X	PCT_70X	PCT_80X	PCT_90X	PCT_100X	FOLD_80_BASE_PENALTY	FOLD_90_BASE_PENALTY	FOLD_95_BASE_PENALTY	HET_SNP_SENSITIVITY	HET_SNP_Q
6005	22.124563	32.028824	0	0	0	0	0.016403	0.003882	0.025703	0.050862	0	0.096849	0.415154	0.398834	0.381349	0.366361	0.347544	0.329059	0.310908	0.266611	0.231973	0.198002	0.145046	0.092756	0.040133	0.009326	?	?	?	0.402007	2

## HISTOGRAM	java.lang.Integer
coverage	high_quality_coverage_count
0	3512
1	25
2	27
3	20
4	26
5	33
6	10
7	25
8	21
9	16
10	26
11	4
12	20
13	16
14	24
15	29
16	17
17	17
18	23
19	27
20	24
21	18
22	17
23	35
24	17
25	9
26	19
27	38
28	20
29	23
30	21
31	13
32	14
33	33
34	41
35	29
36	37
37	24
38	30
39	24
40	26
41	13
42	21
43	19
44	17
45	22
46	22
47	21
48	23
49	24
50	24
51	8
52	5
53	21
54	19
55	29
56	21
57	37
58	17
59	23
60	39
61	30
62	34
63	24
64	19
65	29
66	29
67	36
68	47
69	31
70	26
71	33
72	41
73	37
74	42
75	43
76	34
77	14
78	21
79	23
80	32
81	34
82	29
83	33
84	33
85	22
86	27
87	29
88	45
89	32
90	33
91	26
92	23
93	24
94	20
95	24
96	12
97	4
98	11
99	8
100	10
101	3
102	3
103	2
104	9
105	3
106	5
107	7
108	2
109	1
110	8
111	3
112	0
113	0
114	0
115	0
116	0
117	0
118	0
119	0
120	0
121	0
122	0
123	0
124	0
125	0
126	0
127	0
128	0
129	0
130	0
131	0
132	0
133	0
134	0
135	0
136	0
137	0
138	0
139	0
140	0
141	0
142	0
143	0
144	0
145	0
146	0
147	0
148	0
149	0
150	0
151	0
152	0
153	0
154	0
155	0
156	0
157	0
158	0
159	0
160	0
161	0
162	0
163	0
164	0
165	0
166	0
167	0
168	0
169	0
170	0
171	0
172	0
173	0
174	0
175	0
176	0
177	0
178	0
179	0
180	0
181	0
182	0
183	0
184	0
185	0
186	0
187	0
188	0
189	0
190	0
191	0
192	0
193	0
194	0
195	0
196	0
197	0
198	0
199	0
200	0
201	0
202	0
203	0
204	0
205	0
206	0
207	0
208	0
209	0
210	0
211	0
212	0
213	0
214	0
215	0
216	0
217	0
218	0
219	0
220	0
221	0
222	0
223	0
224	0
225	0
226	0
227	0
228	0
229	0
230	0
231	0
232	0
233	0
234	0
235	0
236	0
237	0
238	0
239	0
240	0
241	0
242	0
243	0
244	0
245	0
246	0
247	0
248	0
249	0
250	0

