## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.EstimateLibraryComplexity INPUT=[prostate_gland-ENCSR999NKW-rep1-1.2x36mers.hg38-no-haps.unique.nochrM.bam] OUTPUT=prostate_gland-ENCSR999NKW-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 22516027 0 0 908090 271498 0.040331 381196184 ## HISTOGRAM java.lang.Integer duplication_group_count Unknown 1 20736503 2 842031 3 27416 4 1143 5 244 6 136 7 94 8 68 9 59 10 21 11 25 12 28 13 21 14 11 15 18 16 11 17 16 18 10 19 8 20 4 21 6 22 5 23 3 24 7 25 3 26 3 27 2 28 4 29 3 30 1 31 1 32 2 33 1 34 4 36 5 37 2 39 1 40 2 41 1 43 2 44 1 45 1 46 2 48 2 50 1 51 2 52 2 53 2 56 1 57 1 59 1 61 2 63 1 64 2 65 1 75 1 76 1 77 1 79 1 80 1 81 1 82 3 83 1 98 1 99 1 113 1 123 1 162 1 178 1 184 1 239 1 244 1 246 1