## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.EstimateLibraryComplexity INPUT=[adrenal_gland-ENCSR113MBR-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.bam] OUTPUT=adrenal_gland-ENCSR113MBR-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 55387126 0 0 1377438 337916 0.024869 1439192397 ## HISTOGRAM java.lang.Integer duplication_group_count Unknown 1 52729799 2 1213488 3 52659 4 8450 5 2698 6 1043 7 505 8 260 9 166 10 100 11 88 12 63 13 47 14 34 15 26 16 21 17 25 18 21 19 16 20 18 21 9 22 9 23 17 24 10 25 14 26 5 27 4 28 6 29 5 30 1 31 4 32 7 33 7 34 5 35 2 36 1 37 4 38 3 39 3 40 2 41 2 42 1 43 3 44 6 45 3 46 3 47 4 48 5 49 1 50 3 51 2 52 3 55 1 57 1 58 1 60 1 61 1 62 1 63 1 65 1 66 1 68 1 69 1 70 3 71 1 72 2 73 1 74 1 77 1 80 1 81 2 83 1 84 1 85 1 86 1 88 1 91 1 92 1 95 1 96 1 98 1 100 1 104 4 105 1 108 1 111 1 114 1 116 1 122 1 131 1 135 1 140 1 143 1 146 1 153 1 164 1 167 1 180 1 189 1 190 1 197 1 202 1 210 1 227 1 250 1