## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.EstimateLibraryComplexity INPUT=[sigmoid_colon-ENCSR846VLJ-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.bam] OUTPUT=sigmoid_colon-ENCSR846VLJ-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 10:30:54 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 52262041 0 0 7652680 6394798 0.146429 820888538 ## HISTOGRAM java.lang.Integer duplication_group_count Unknown 1 38230649 2 5376993 3 815879 4 140058 5 29600 6 8676 7 3275 8 1626 9 862 10 511 11 330 12 220 13 153 14 107 15 67 16 48 17 41 18 26 19 23 20 22 21 19 22 11 23 12 24 12 25 11 26 9 27 9 28 5 29 9 30 5 31 7 32 2 33 4 34 6 35 3 36 4 37 5 38 2 39 4 40 6 41 2 42 6 44 3 45 4 46 2 47 1 48 3 50 3 55 1 58 1 60 2 62 2 63 1 64 4 65 2 67 1 69 2 70 1 71 4 72 1 73 1 75 1 78 1 79 1 80 1 81 3 82 1 84 2 85 1 87 1 89 1 91 1 92 1 93 2 94 1 96 2 98 1 102 2 106 1 111 1 112 1 116 1 132 1 138 1 148 1 151 1 174 1