Mercurial > repos > avowinkel > picard
comparison test-data/picard_CollectRnaSeqMetrics_test1.tab @ 0:5166ed57b1c4 draft
Uploaded version 1.135
author | avowinkel |
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date | Mon, 06 Jul 2015 14:46:32 -0400 |
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-1:000000000000 | 0:5166ed57b1c4 |
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1 ## htsjdk.samtools.metrics.StringHeader | |
2 # picard.analysis.CollectRnaSeqMetrics REF_FLAT=refFlat.tab STRAND_SPECIFICITY=NONE MINIMUM_LENGTH=500 CHART_OUTPUT=/Users/anton/galaxy-central/database/files/000/dataset_792.dat RRNA_FRAGMENT_PERCENTAGE=0.8 METRIC_ACCUMULATION_LEVEL=[ALL_READS] INPUT=/Users/anton/galaxy-central/database/files/000/dataset_773.dat OUTPUT=/Users/anton/galaxy-central/database/files/000/dataset_793.dat REFERENCE_SEQUENCE=localref.fa ASSUME_SORTED=true VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT STOP_AFTER=0 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false | |
3 ## htsjdk.samtools.metrics.StringHeader | |
4 # Started on: Mon Oct 06 22:24:48 EDT 2014 | |
5 | |
6 ## METRICS CLASS picard.analysis.RnaSeqMetrics | |
7 PF_BASES PF_ALIGNED_BASES RIBOSOMAL_BASES CODING_BASES UTR_BASES INTRONIC_BASES INTERGENIC_BASES IGNORED_READS CORRECT_STRAND_READS INCORRECT_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 | |
8 48870 48712 0 38786 3735 6191 0 0 0 0 0.796231 0.076675 0.127094 0.796231 0.793657 0 0.867456 0.432948 0.262822 0.657143 | |
9 | |
10 ## HISTOGRAM java.lang.Integer | |
11 normalized_position All_Reads.normalized_coverage | |
12 0 0.31117 | |
13 1 0.324521 | |
14 2 0.280175 | |
15 3 0.229683 | |
16 4 0.247568 | |
17 5 0.252404 | |
18 6 0.37536 | |
19 7 0.454337 | |
20 8 0.498193 | |
21 9 0.717955 | |
22 10 0.852206 | |
23 11 0.841585 | |
24 12 0.883517 | |
25 13 0.878327 | |
26 14 0.971971 | |
27 15 0.946456 | |
28 16 1.096539 | |
29 17 1.085217 | |
30 18 1.030988 | |
31 19 1.169726 | |
32 20 1.06324 | |
33 21 1.124029 | |
34 22 1.021164 | |
35 23 1.111695 | |
36 24 1.036323 | |
37 25 0.996034 | |
38 26 1.08738 | |
39 27 1.107549 | |
40 28 0.955729 | |
41 29 0.907313 | |
42 30 1.049856 | |
43 31 1.068308 | |
44 32 1.05576 | |
45 33 1.004803 | |
46 34 1.044887 | |
47 35 1.020916 | |
48 36 0.914561 | |
49 37 0.943721 | |
50 38 0.938101 | |
51 39 0.921157 | |
52 40 1.059497 | |
53 41 1.067667 | |
54 42 1.164889 | |
55 43 1.252036 | |
56 44 1.294715 | |
57 45 1.236472 | |
58 46 1.169812 | |
59 47 1.236597 | |
60 48 1.067639 | |
61 49 1.045102 | |
62 50 0.994369 | |
63 51 0.923449 | |
64 52 0.915703 | |
65 53 0.920667 | |
66 54 0.840804 | |
67 55 0.731542 | |
68 56 0.785935 | |
69 57 0.803421 | |
70 58 0.797747 | |
71 59 0.754627 | |
72 60 0.748683 | |
73 61 0.774967 | |
74 62 0.880321 | |
75 63 0.958948 | |
76 64 1.066362 | |
77 65 1.151358 | |
78 66 1.289535 | |
79 67 1.358181 | |
80 68 1.33396 | |
81 69 1.140164 | |
82 70 1.260899 | |
83 71 1.226678 | |
84 72 1.259541 | |
85 73 1.288495 | |
86 74 1.484984 | |
87 75 1.41511 | |
88 76 1.351353 | |
89 77 1.337399 | |
90 78 1.340637 | |
91 79 1.293356 | |
92 80 1.327074 | |
93 81 1.345788 | |
94 82 1.469492 | |
95 83 1.563011 | |
96 84 1.528971 | |
97 85 1.651207 | |
98 86 1.640289 | |
99 87 1.468521 | |
100 88 1.482936 | |
101 89 1.396498 | |
102 90 1.326153 | |
103 91 1.191411 | |
104 92 1.054954 | |
105 93 0.938397 | |
106 94 0.82527 | |
107 95 0.630468 | |
108 96 0.417112 | |
109 97 0.327528 | |
110 98 0.308028 | |
111 99 0.329076 | |
112 100 0.315292 | |
113 |