## htsjdk.samtools.metrics.StringHeader
# CollectRnaSeqMetrics REF_FLAT=genes_refFlat RIBOSOMAL_INTERVALS=rRNA_intervalList_sorted STRAND_SPECIFICITY=NONE INPUT=WTF_1_primary_unique.bam OUTPUT=CollectRnaSeqMetrics/WTF_1_metrics    MINIMUM_LENGTH=500 RRNA_FRAGMENT_PERCENTAGE=0.8 METRIC_ACCUMULATION_LEVEL=[ALL_READS] ASSUME_SORTED=true STOP_AFTER=0 VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json USE_JDK_DEFLATER=false USE_JDK_INFLATER=false
## htsjdk.samtools.metrics.StringHeader
# Started on: Mon Mar 09 10:54:32 EDT 2020

## METRICS CLASS	picard.analysis.RnaSeqMetrics
PF_BASES	PF_ALIGNED_BASES	RIBOSOMAL_BASES	CODING_BASES	UTR_BASES	INTRONIC_BASES	INTERGENIC_BASES	IGNORED_READS	CORRECT_STRAND_READS	INCORRECT_STRAND_READS	NUM_R1_TRANSCRIPT_STRAND_READS	NUM_R2_TRANSCRIPT_STRAND_READS	NUM_UNEXPLAINED_READS	PCT_R1_TRANSCRIPT_STRAND_READS	PCT_R2_TRANSCRIPT_STRAND_READS	PCT_RIBOSOMAL_BASES	PCT_CODING_BASES	PCT_UTR_BASES	PCT_INTRONIC_BASES	PCT_INTERGENIC_BASES	PCT_MRNA_BASES	PCT_USABLE_BASES	PCT_CORRECT_STRAND_READS	MEDIAN_CV_COVERAGE	MEDIAN_5PRIME_BIAS	MEDIAN_3PRIME_BIAS	MEDIAN_5PRIME_TO_3PRIME_BIAS	SAMPLE	LIBRARY	READ_GROUP
1790761050	1790615465	323247724	898529363	251939368	141098780	175800230	0	0	0	30455	14870292	20892	0.002044	0.997956	0.180523	0.501799	0.1407	0.078799	0.098179	0.642499	0.642447	0	0.742969	0.04658	0.543221	0.089546			

## HISTOGRAM	java.lang.Integer
normalized_position	All_Reads.normalized_coverage
0	0.037664
1	0.051179
2	0.091193
3	0.156607
4	0.222885
5	0.331061
6	0.449698
7	0.55863
8	0.641609
9	0.682041
10	0.703819
11	0.734962
12	0.806379
13	0.846147
14	0.886083
15	0.902113
16	0.90363
17	0.93056
18	0.953616
19	0.98597
20	1.026754
21	1.050872
22	1.071287
23	1.085907
24	1.091844
25	1.107087
26	1.117939
27	1.156188
28	1.162937
29	1.15787
30	1.180169
31	1.186837
32	1.191358
33	1.20007
34	1.211038
35	1.228917
36	1.236833
37	1.238634
38	1.20689
39	1.200408
40	1.222238
41	1.233521
42	1.246139
43	1.252378
44	1.252242
45	1.234192
46	1.222514
47	1.200369
48	1.194673
49	1.208725
50	1.213575
51	1.183364
52	1.181635
53	1.208843
54	1.211793
55	1.205155
56	1.195626
57	1.188701
58	1.215221
59	1.240474
60	1.251578
61	1.225112
62	1.176638
63	1.188662
64	1.191106
65	1.194101
66	1.152277
67	1.135166
68	1.123157
69	1.115636
70	1.113892
71	1.121226
72	1.120294
73	1.106418
74	1.087705
75	1.066883
76	1.070239
77	1.090062
78	1.092242
79	1.081796
80	1.072633
81	1.049103
82	1.032635
83	1.033037
84	1.034632
85	1.056747
86	1.030034
87	1.002724
88	1.0106
89	1.00413
90	0.986236
91	0.977182
92	0.95923
93	0.907999
94	0.861159
95	0.818417
96	0.762745
97	0.663933
98	0.490248
99	0.281548
100	0.097596