## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.EstimateLibraryComplexity INPUT=[adrenal_gland-ENCSR414DVK-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.bam] OUTPUT=adrenal_gland-ENCSR414DVK-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.est_lib_complex_metrics.txt MIN_IDENTICAL_BASES=5 MAX_DIFF_RATE=0.03 MIN_MEAN_QUALITY=20 MAX_GROUP_RATIO=500 READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).* OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false ## net.sf.picard.metrics.StringHeader # Started on: Mon Nov 25 10:29:47 PST 2019 ## METRICS CLASS net.sf.picard.sam.DuplicationMetrics LIBRARY UNPAIRED_READS_EXAMINED READ_PAIRS_EXAMINED UNMAPPED_READS UNPAIRED_READ_DUPLICATES READ_PAIR_DUPLICATES READ_PAIR_OPTICAL_DUPLICATES PERCENT_DUPLICATION ESTIMATED_LIBRARY_SIZE Unknown 0 12308634 0 0 333423 115022 0.027089 336315823 ## HISTOGRAM java.lang.Integer duplication_group_count Unknown 1 11671377 2 295300 3 6531 4 491 5 247 6 198 7 132 8 99 9 77 10 56 11 66 12 44 13 46 14 43 15 22 16 32 17 27 18 28 19 17 20 26 21 19 22 19 23 20 24 17 25 15 26 7 27 11 28 15 29 16 30 10 31 8 32 14 33 10 34 13 35 6 36 8 37 4 38 4 39 4 40 8 41 3 42 4 43 8 44 4 45 6 46 3 47 3 48 3 49 4 50 6 51 5 52 3 54 3 55 5 56 4 57 3 58 1 59 7 60 2 61 1 62 2 63 1 66 2 67 2 68 4 69 1 70 1 71 3 72 4 73 1 75 2 77 1 78 2 79 2 80 1 82 1 84 1 85 4 86 1 87 1 88 1 89 2 90 2 91 2 93 1 95 2 96 3 97 3 100 1 102 1 104 1 106 1 107 1 109 1 110 1 113 1 116 1 120 1 121 1 126 1 128 1 133 3 134 1 139 1 140 1 142 1 145 1 146 1 150 1 153 1 159 2 175 1 178 1 186 2 191 1 196 1 198 1 199 1 201 1 225 1 239 1 242 1 247 1 249 1 293 1 309 1 356 1 389 1 438 1