## net.sf.picard.metrics.StringHeader # net.sf.picard.sam.MarkDuplicates INPUT=[LUC1-H3K27ac.2x25mers.hg38.unique.bam] OUTPUT=LUC1-H3K27ac.2x25mers.hg38.unique.dedup.bam METRICS_FILE=LUC1-H3K27ac.2x25mers.hg38.unique.dedup.metric REMOVE_DUPLICATES=true ASSUME_SORTED=true VALIDATION_STRINGENCY=LENIENT PROGRAM_RECORD_ID=MarkDuplicates PROGRAM_GROUP_NAME=MarkDuplicates MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 SORTING_COLLECTION_SIZE_RATIO=0.25 READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).* OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VERBOSITY=INFO QUIET=false COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false ## net.sf.picard.metrics.StringHeader # Started on: Wed Feb 01 14:20:04 PST 2023 ## 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 Library 0 5111734 2016286 0 709184 449932 0.138736 40344874 ## HISTOGRAM java.lang.Double BIN VALUE 1.0 1.09054 2.0 2.051303 3.0 2.897732 4.0 3.643433 5.0 4.300394 6.0 4.879175 7.0 5.389079 8.0 5.838303 9.0 6.234068 10.0 6.582736 11.0 6.889911 12.0 7.160532 13.0 7.398948 14.0 7.608992 15.0 7.79404 16.0 7.957066 17.0 8.100692 18.0 8.227227 19.0 8.338703 20.0 8.436913 21.0 8.523436 22.0 8.599662 23.0 8.666818 24.0 8.725981 25.0 8.778104 26.0 8.824024 27.0 8.86448 28.0 8.900121 29.0 8.931521 30.0 8.959184 31.0 8.983555 32.0 9.005026 33.0 9.023942 34.0 9.040607 35.0 9.055288 36.0 9.068223 37.0 9.079618 38.0 9.089657 39.0 9.098502 40.0 9.106294 41.0 9.113158 42.0 9.119206 43.0 9.124534 44.0 9.129228 45.0 9.133364 46.0 9.137007 47.0 9.140217 48.0 9.143044 49.0 9.145536 50.0 9.14773 51.0 9.149664 52.0 9.151367 53.0 9.152868 54.0 9.15419 55.0 9.155355 56.0 9.156381 57.0 9.157285 58.0 9.158082 59.0 9.158784 60.0 9.159402 61.0 9.159947 62.0 9.160426 63.0 9.160849 64.0 9.161222 65.0 9.16155 66.0 9.161839 67.0 9.162093 68.0 9.162318 69.0 9.162515 70.0 9.162689 71.0 9.162843 72.0 9.162978 73.0 9.163097 74.0 9.163202 75.0 9.163294 76.0 9.163376 77.0 9.163448 78.0 9.163511 79.0 9.163566 80.0 9.163615 81.0 9.163659 82.0 9.163697 83.0 9.16373 84.0 9.16376 85.0 9.163786 86.0 9.163809 87.0 9.163829 88.0 9.163847 89.0 9.163863 90.0 9.163876 91.0 9.163888 92.0 9.163899 93.0 9.163909 94.0 9.163917 95.0 9.163924 96.0 9.163931 97.0 9.163936 98.0 9.163941 99.0 9.163946 100.0 9.16395