## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.EstimateLibraryComplexity INPUT=[sigmoid_colon-ENCSR548QCP-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.bam] OUTPUT=sigmoid_colon-ENCSR548QCP-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 58509644 0 0 6929597 6055579 0.118435 1556477915 ## HISTOGRAM java.lang.Integer duplication_group_count Unknown 1 45502878 2 5346957 3 635913 4 79691 5 10990 6 1966 7 540 8 232 9 154 10 126 11 89 12 72 13 72 14 45 15 34 16 34 17 31 18 27 19 21 20 17 21 13 22 12 23 13 24 11 25 7 26 7 27 8 28 8 29 2 30 5 31 3 32 8 33 5 34 6 35 4 36 3 37 1 38 1 39 3 40 6 41 2 42 6 43 1 44 3 45 3 46 2 47 1 49 3 50 2 52 2 53 1 54 2 56 3 57 2 58 2 60 1 64 2 65 1 67 1 68 1 70 1 74 1 77 1 78 1 80 1 81 1 84 1 85 1 94 1 95 1 96 1 132 1 165 1 183 1