## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.EstimateLibraryComplexity INPUT=[gastroesophageal_sphincter-ENCSR670REK-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.bam] OUTPUT=gastroesophageal_sphincter-ENCSR670REK-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 10:30:48 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 52156579 0 0 6690496 5804790 0.128277 1197367358 ## HISTOGRAM java.lang.Integer duplication_group_count Unknown 1 39669030 2 5042191 3 647807 4 87747 5 14017 6 3094 7 990 8 457 9 252 10 125 11 73 12 67 13 41 14 38 15 23 16 17 17 14 18 13 19 9 20 4 21 11 22 8 23 7 24 4 25 6 26 4 27 3 28 5 29 4 30 4 31 4 32 4 33 4 34 1 35 2 38 2 39 1 40 1 41 1 43 1 44 2 45 1 46 1 47 1 51 1 52 1 53 1 58 1 60 1 64 1 68 1 77 1 119 1 125 1