## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.EstimateLibraryComplexity INPUT=[transverse_colon-ENCSR761TKU-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.bam] OUTPUT=transverse_colon-ENCSR761TKU-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 10:30:59 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 46219669 0 0 4980768 4484687 0.107763 1741629474 ## HISTOGRAM java.lang.Integer duplication_group_count Unknown 1 36823094 2 3924702 3 432660 4 50108 5 6339 6 1053 7 313 8 153 9 111 10 62 11 46 12 42 13 25 14 22 15 17 16 11 17 16 18 10 19 14 20 10 21 6 22 12 23 6 24 6 25 10 26 6 27 9 28 2 29 2 30 4 31 3 32 5 33 4 34 1 35 3 36 4 37 1 39 2 40 1 41 1 42 2 43 1 45 1 46 1 47 3 48 1 49 1 50 1 53 1 55 2 57 1 59 2 60 1 61 1 62 1 68 1 73 1 113 1 144 1