## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.EstimateLibraryComplexity INPUT=[spleen-ENCSR078EBD-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.bam] OUTPUT=spleen-ENCSR078EBD-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 49732208 0 0 5332183 4839331 0.107218 2029608172 ## HISTOGRAM java.lang.Integer duplication_group_count Unknown 1 39648629 2 4244333 3 450568 4 48565 5 5785 6 941 7 320 8 187 9 111 10 100 11 83 12 48 13 63 14 36 15 36 16 39 17 17 18 24 19 21 20 14 21 11 22 11 23 6 24 9 25 3 26 6 27 8 28 5 29 5 31 4 32 2 33 2 34 7 35 1 36 1 37 2 38 2 39 1 40 3 41 3 42 3 43 3 44 2 45 2 46 2 47 1 51 1 52 2 56 1 57 1 61 1 67 1 69 1 84 1 86 1 97 2 121 1 144 1 156 1