/test-data/picard_MD_output3.txt

https://bitbucket.org/cistrome/cistrome-harvard/ · Plain Text · 112 lines · 109 code · 3 blank · 0 comment · 0 complexity · 394c7465834c56ddb92f775840e0bb49 MD5 · raw file

  1. ## net.sf.picard.metrics.StringHeader
  2. # net.sf.picard.sam.MarkDuplicates INPUT=picard_input_tiny_coord.sam OUTPUT=picard_MD_output4_.sam METRICS_FILE=picard_MD_output3_.txt REMOVE_DUPLICATES=true ASSUME_SORTED=false READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).* OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VALIDATION_STRINGENCY=LENIENT MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 TMP_DIR=/tmp/kpvincent VERBOSITY=INFO QUIET=false 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 Apr 19 15:32:38 EDT 2011
  5. ## METRICS CLASS net.sf.picard.sam.DuplicationMetrics
  6. LIBRARY UNPAIRED_READS_EXAMINED READ_PAIRS_EXAMINED UNMAPPED_READS UNPAIRED_READ_DUPLICATES READ_PAIR_DUPLICATES READ_PAIR_OPTICAL_DUPLICATES PERCENT_DUPLICATION ESTIMATED_LIBRARY_SIZE
  7. 1 3 1 1 1 0 0.428571 3
  8. ## HISTOGRAM java.lang.Double
  9. BIN VALUE
  10. 1.0 0.948181
  11. 2.0 1.296997
  12. 3.0 1.425319
  13. 4.0 1.472527
  14. 5.0 1.489893
  15. 6.0 1.496282
  16. 7.0 1.498632
  17. 8.0 1.499497
  18. 9.0 1.499815
  19. 10.0 1.499932
  20. 11.0 1.499975
  21. 12.0 1.499991
  22. 13.0 1.499997
  23. 14.0 1.499999
  24. 15.0 1.5
  25. 16.0 1.5
  26. 17.0 1.5
  27. 18.0 1.5
  28. 19.0 1.5
  29. 20.0 1.5
  30. 21.0 1.5
  31. 22.0 1.5
  32. 23.0 1.5
  33. 24.0 1.5
  34. 25.0 1.5
  35. 26.0 1.5
  36. 27.0 1.5
  37. 28.0 1.5
  38. 29.0 1.5
  39. 30.0 1.5
  40. 31.0 1.5
  41. 32.0 1.5
  42. 33.0 1.5
  43. 34.0 1.5
  44. 35.0 1.5
  45. 36.0 1.5
  46. 37.0 1.5
  47. 38.0 1.5
  48. 39.0 1.5
  49. 40.0 1.5
  50. 41.0 1.5
  51. 42.0 1.5
  52. 43.0 1.5
  53. 44.0 1.5
  54. 45.0 1.5
  55. 46.0 1.5
  56. 47.0 1.5
  57. 48.0 1.5
  58. 49.0 1.5
  59. 50.0 1.5
  60. 51.0 1.5
  61. 52.0 1.5
  62. 53.0 1.5
  63. 54.0 1.5
  64. 55.0 1.5
  65. 56.0 1.5
  66. 57.0 1.5
  67. 58.0 1.5
  68. 59.0 1.5
  69. 60.0 1.5
  70. 61.0 1.5
  71. 62.0 1.5
  72. 63.0 1.5
  73. 64.0 1.5
  74. 65.0 1.5
  75. 66.0 1.5
  76. 67.0 1.5
  77. 68.0 1.5
  78. 69.0 1.5
  79. 70.0 1.5
  80. 71.0 1.5
  81. 72.0 1.5
  82. 73.0 1.5
  83. 74.0 1.5
  84. 75.0 1.5
  85. 76.0 1.5
  86. 77.0 1.5
  87. 78.0 1.5
  88. 79.0 1.5
  89. 80.0 1.5
  90. 81.0 1.5
  91. 82.0 1.5
  92. 83.0 1.5
  93. 84.0 1.5
  94. 85.0 1.5
  95. 86.0 1.5
  96. 87.0 1.5
  97. 88.0 1.5
  98. 89.0 1.5
  99. 90.0 1.5
  100. 91.0 1.5
  101. 92.0 1.5
  102. 93.0 1.5
  103. 94.0 1.5
  104. 95.0 1.5
  105. 96.0 1.5
  106. 97.0 1.5
  107. 98.0 1.5
  108. 99.0 1.5
  109. 100.0 1.5