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8
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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=/tmp/tmpRJquSu/files/000/dataset_14.dat RRNA_FRAGMENT_PERCENTAGE=0.8 METRIC_ACCUMULATION_LEVEL=[ALL_READS] INPUT=picard_CollectRnaSeqMetrics_bam OUTPUT=/tmp/tmpRJquSu/files/000/dataset_15.dat ASSUME_SORTED=true VALIDATION_STRINGENCY=LENIENT REFERENCE_SEQUENCE=localref.fa STOP_AFTER=0 VERBOSITY=INFO QUIET=false COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json
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3 ## htsjdk.samtools.metrics.StringHeader
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4 # Started on: Thu Dec 08 10:55:06 CET 2016
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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 0 9926 0 0 0 0 0.796231 0 0.203769 0.796231 0.793657 0 0.91593 0.430026 0.235755 1.402829
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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 0.313906
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13 1 0.333933
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14 2 0.365536
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15 3 0.344525
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16 4 0.371353
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17 5 0.378606
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18 6 0.518015
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19 7 0.51266
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20 8 0.500497
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21 9 0.690539
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22 10 0.829611
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23 11 0.784227
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24 12 0.825037
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25 13 0.730533
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26 14 0.73133
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27 15 0.693057
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28 16 0.873759
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29 17 0.774195
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30 18 0.721989
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31 19 0.791727
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32 20 0.697702
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33 21 0.698451
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34 22 0.568885
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35 23 0.689955
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36 24 0.580475
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37 25 0.602348
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38 26 0.657286
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39 27 0.600594
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40 28 0.48185
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41 29 0.478605
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42 30 0.646053
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43 31 0.689366
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44 32 0.740073
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45 33 0.695415
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46 34 0.708419
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47 35 0.714707
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48 36 0.707421
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49 37 0.793703
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50 38 0.84384
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51 39 0.819497
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52 40 0.982412
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53 41 1.172387
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54 42 1.28116
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55 43 1.379184
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56 44 1.416285
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57 45 1.32892
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58 46 1.248258
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59 47 1.308676
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60 48 1.085518
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61 49 1.006687
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62 50 0.851309
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63 51 0.693805
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64 52 0.672921
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65 53 0.684999
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66 54 0.62579
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67 55 0.529832
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68 56 0.546564
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69 57 0.566014
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70 58 0.615824
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71 59 0.565042
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72 60 0.547677
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73 61 0.642067
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74 62 0.83636
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75 63 0.937071
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76 64 1.057465
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77 65 1.168829
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78 66 1.375228
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79 67 1.489487
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80 68 1.530099
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81 69 1.287542
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82 70 1.442585
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83 71 1.347823
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84 72 1.424913
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85 73 1.468345
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86 74 1.796846
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87 75 1.79639
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88 76 1.747908
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89 77 1.76867
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90 78 1.773528
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91 79 1.670178
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92 80 1.740083
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93 81 1.809632
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94 82 2.019967
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95 83 2.201517
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96 84 2.150455
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97 85 2.327367
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98 86 2.261259
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99 87 1.929731
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100 88 1.936627
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101 89 1.80697
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102 90 1.789004
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103 91 1.642341
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104 92 1.408203
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105 93 1.159737
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106 94 0.990047
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107 95 0.697842
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108 96 0.377809
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109 97 0.243433
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110 98 0.218816
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111 99 0.223665
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112 100 0.225079
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113
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