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comparison test-data/picard_output_gc_summary_alignment_stats.txt @ 0:1cd7f3b42609

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author devteam
date Tue, 23 Oct 2012 13:14:29 -0400
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-1:000000000000 0:1cd7f3b42609
1 ## net.sf.picard.metrics.StringHeader
2 # net.sf.picard.analysis.CollectGcBiasMetrics REFERENCE_SEQUENCE=testdata/picard/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta INPUT=testdata/picard/sam/summary_alignment_stats_test.sam OUTPUT=output_test_gc_nodict/test_nodic_ref_gc_summary_alignment_stats_test.txt CHART_OUTPUT=output_test_gc_nodict/test_nodic_ref_gc_summary_alignment_stats_test.pdf WINDOW_SIZE=100 MINIMUM_GENOME_FRACTION=1.0E-5 TMP_DIR=/tmp/raphael VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false
3 ## net.sf.picard.metrics.StringHeader
4 # Started on: Tue Oct 26 13:54:53 EDT 2010
5
6 ## METRICS CLASS net.sf.picard.analysis.GcBiasDetailMetrics
7 GC WINDOWS READ_STARTS MEAN_BASE_QUALITY NORMALIZED_COVERAGE ERROR_BAR_WIDTH
8 6 3 0 0 0 0
9 7 7 0 0 0 0
10 8 6 0 0 0 0
11 9 45 0 0 0 0
12 10 54 0 0 0 0
13 11 83 0 0 0 0
14 12 110 0 0 0 0
15 13 83 0 0 0 0
16 14 130 0 0 0 0
17 15 178 0 0 0 0
18 16 276 0 0 0 0
19 17 352 0 0 0 0
20 18 519 0 0 0 0
21 19 658 0 0 0 0
22 20 1073 0 0 0 0
23 21 1543 0 0 0 0
24 22 2024 0 0 0 0
25 23 2631 0 0 0 0
26 24 3758 0 0 0 0
27 25 5087 0 0 0 0
28 26 6543 0 0 0 0
29 27 8020 0 0 0 0
30 28 10251 0 0 0 0
31 29 12241 0 0 0 0
32 30 14189 0 0 0 0
33 31 16295 0 0 0 0
34 32 17995 0 0 0 0
35 33 20131 0 0 0 0
36 34 22194 0 0 0 0
37 35 23848 0 0 0 0
38 36 25355 0 0 0 0
39 37 27310 0 0 0 0
40 38 28274 0 0 0 0
41 39 28818 0 0 0 0
42 40 28806 0 0 0 0
43 41 29651 0 0 0 0
44 42 30773 0 0 0 0
45 43 31217 0 0 0 0
46 44 31743 0 0 0 0
47 45 32727 0 0 0 0
48 46 34084 0 0 0 0
49 47 35307 0 0 0 0
50 48 36752 0 0 0 0
51 49 36917 0 0 0 0
52 50 36561 0 0 0 0
53 51 36399 0 0 0 0
54 52 35677 0 0 0 0
55 53 34354 1 1 29.352448 29.352448
56 54 32401 0 0 0 0
57 55 30417 0 0 0 0
58 56 28588 0 0 0 0
59 57 27083 0 0 0 0
60 58 24090 0 0 0 0
61 59 20995 0 0 0 0
62 60 17702 0 0 0 0
63 61 14252 0 0 0 0
64 62 11595 0 0 0 0
65 63 9077 0 0 0 0
66 64 6863 0 0 0 0
67 65 5394 0 0 0 0
68 66 4304 0 0 0 0
69 67 3551 0 0 0 0
70 68 2776 0 0 0 0
71 69 2321 0 0 0 0
72 70 1999 0 0 0 0
73 71 1777 0 0 0 0
74 72 1444 0 0 0 0
75 73 1367 0 0 0 0
76 74 1182 0 0 0 0
77 75 975 0 0 0 0
78 76 807 0 0 0 0
79 77 852 0 0 0 0
80 78 867 0 0 0 0
81 79 925 0 0 0 0
82 80 786 0 0 0 0
83 81 762 0 0 0 0
84 82 578 0 0 0 0
85 83 475 0 0 0 0
86 84 391 0 0 0 0
87 85 219 0 0 0 0
88 86 184 0 0 0 0
89 87 75 0 0 0 0
90 88 36 0 0 0 0
91 89 37 0 0 0 0
92 90 24 0 0 0 0
93 91 40 0 0 0 0
94 92 33 0 0 0 0
95 93 11 0 0 0 0
96 94 24 0 0 0 0
97 95 12 0 0 0 0
98 96 11 0 0 0 0
99 97 11 0 0 0 0
100 98 9 0 0 0 0
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