Mercurial > repos > engineson > multiqc
view multiqc/test-data/MarkDuplicates_data.txt @ 7:4612d775965f draft
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author | engineson |
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date | Thu, 25 May 2017 17:49:13 -0400 |
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## htsjdk.samtools.metrics.StringHeader # picard.sam.markduplicates.MarkDuplicates INPUT=[/omaha-beach/cloud_26/files/000/dataset_114.dat] OUTPUT=/omaha-beach/cloud_26/files/000/dataset_197.dat METRICS_FILE=/omaha-beach/cloud_26/files/000/dataset_196.dat REMOVE_DUPLICATES=false ASSUME_SORTED=true DUPLICATE_SCORING_STRATEGY=SUM_OF_BASE_QUALITIES READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).*. OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 SORTING_COLLECTION_SIZE_RATIO=0.25 PROGRAM_RECORD_ID=MarkDuplicates PROGRAM_GROUP_NAME=MarkDuplicates COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json ## htsjdk.samtools.metrics.StringHeader # Started on: Mon May 23 09:32:41 UTC 2016 ## METRICS CLASS 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 2900 313405 0 2257 629 0 0.005582 77973949 ## HISTOGRAM java.lang.Double BIN VALUE 1.0 1 2.0 1.995989 3.0 2.987982 4.0 3.975997 5.0 4.960048 6.0 5.940152 7.0 6.916324 8.0 7.88858 9.0 8.856937 10.0 9.821409 11.0 10.782013 12.0 11.738763 13.0 12.691676 14.0 13.640766 15.0 14.586049 16.0 15.52754 17.0 16.465254 18.0 17.399207 19.0 18.329414 20.0 19.25589 21.0 20.178649 22.0 21.097706 23.0 22.013077 24.0 22.924776 25.0 23.832819 26.0 24.737218 27.0 25.63799 28.0 26.535149 29.0 27.428709 30.0 28.318684 31.0 29.20509 32.0 30.08794 33.0 30.967248 34.0 31.84303 35.0 32.715298 36.0 33.584068 37.0 34.449352 38.0 35.311166 39.0 36.169523 40.0 37.024436 41.0 37.875921 42.0 38.723989 43.0 39.568656 44.0 40.409935 45.0 41.247839 46.0 42.082382 47.0 42.913578 48.0 43.741439 49.0 44.565979 50.0 45.387212 51.0 46.205151 52.0 47.019809 53.0 47.831199 54.0 48.639334 55.0 49.444228 56.0 50.245893 57.0 51.044342 58.0 51.839588 59.0 52.631645 60.0 53.420524 61.0 54.206239 62.0 54.988802 63.0 55.768226 64.0 56.544524 65.0 57.317707 66.0 58.087789 67.0 58.854783 68.0 59.618699 69.0 60.379551 70.0 61.137352 71.0 61.892112 72.0 62.643845 73.0 63.392562 74.0 64.138276 75.0 64.880999 76.0 65.620743 77.0 66.357519 78.0 67.09134 79.0 67.822217 80.0 68.550163 81.0 69.275188 82.0 69.997306 83.0 70.716526 84.0 71.432862 85.0 72.146324 86.0 72.856924 87.0 73.564674 88.0 74.269585 89.0 74.971668 90.0 75.670935 91.0 76.367397 92.0 77.061066 93.0 77.751952 94.0 78.440066 95.0 79.12542 96.0 79.808025 97.0 80.487892 98.0 81.165032 99.0 81.839456 100.0 82.511174