## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.EstimateLibraryComplexity INPUT=[transverse_colon-ENCSR668VCT-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.bam] OUTPUT=transverse_colon-ENCSR668VCT-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 10:31:00 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 50820776 0 0 6611405 5853691 0.130093 1319270574 ## HISTOGRAM java.lang.Integer duplication_group_count Unknown 1 38487659 2 4965838 3 650668 4 88665 5 12922 6 2251 7 556 8 200 9 114 10 70 11 55 12 44 13 29 14 26 15 28 16 22 17 17 18 17 19 16 20 13 21 9 22 9 23 9 24 14 25 11 26 9 27 6 28 4 29 10 30 9 31 3 32 5 33 3 34 1 35 6 36 1 37 3 38 6 39 2 40 2 41 1 42 2 44 4 45 3 47 4 48 2 49 4 50 2 51 1 52 1 53 1 54 2 55 1 56 1 58 3 60 1 62 2 63 3 64 1 65 2 67 2 69 2 70 1 72 1 74 1 76 1 78 1 79 2 85 1 87 1 88 2 93 1 96 1 98 1 108 1 110 1 114 1 116 1 117 1 118 1 127 1 134 1 137 1 284 1