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1 ## htsjdk.samtools.metrics.StringHeader
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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
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3 ## htsjdk.samtools.metrics.StringHeader
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4 # Started on: Mon Oct 06 22:24:48 EDT 2014
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5
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6 ## METRICS CLASS picard.analysis.RnaSeqMetrics
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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
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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
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9
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10 ## HISTOGRAM java.lang.Integer
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11 normalized_position All_Reads.normalized_coverage
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12 0 0.31117
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13 1 0.324521
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14 2 0.280175
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15 3 0.229683
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16 4 0.247568
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17 5 0.252404
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18 6 0.37536
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19 7 0.454337
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20 8 0.498193
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21 9 0.717955
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22 10 0.852206
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23 11 0.841585
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24 12 0.883517
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25 13 0.878327
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26 14 0.971971
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27 15 0.946456
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28 16 1.096539
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29 17 1.085217
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30 18 1.030988
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31 19 1.169726
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32 20 1.06324
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33 21 1.124029
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34 22 1.021164
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35 23 1.111695
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36 24 1.036323
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37 25 0.996034
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38 26 1.08738
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39 27 1.107549
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40 28 0.955729
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41 29 0.907313
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42 30 1.049856
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43 31 1.068308
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44 32 1.05576
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45 33 1.004803
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46 34 1.044887
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47 35 1.020916
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48 36 0.914561
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49 37 0.943721
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50 38 0.938101
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51 39 0.921157
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52 40 1.059497
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53 41 1.067667
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54 42 1.164889
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55 43 1.252036
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56 44 1.294715
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57 45 1.236472
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58 46 1.169812
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59 47 1.236597
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60 48 1.067639
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61 49 1.045102
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62 50 0.994369
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63 51 0.923449
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64 52 0.915703
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65 53 0.920667
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66 54 0.840804
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67 55 0.731542
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68 56 0.785935
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69 57 0.803421
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70 58 0.797747
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71 59 0.754627
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72 60 0.748683
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73 61 0.774967
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74 62 0.880321
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75 63 0.958948
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76 64 1.066362
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77 65 1.151358
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78 66 1.289535
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79 67 1.358181
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80 68 1.33396
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81 69 1.140164
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82 70 1.260899
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83 71 1.226678
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84 72 1.259541
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85 73 1.288495
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86 74 1.484984
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87 75 1.41511
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88 76 1.351353
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89 77 1.337399
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90 78 1.340637
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91 79 1.293356
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92 80 1.327074
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93 81 1.345788
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94 82 1.469492
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95 83 1.563011
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96 84 1.528971
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97 85 1.651207
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98 86 1.640289
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99 87 1.468521
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100 88 1.482936
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101 89 1.396498
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102 90 1.326153
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103 91 1.191411
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104 92 1.054954
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105 93 0.938397
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106 94 0.82527
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107 95 0.630468
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108 96 0.417112
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109 97 0.327528
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110 98 0.308028
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111 99 0.329076
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112 100 0.315292
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113
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