Mercurial > repos > iuc > multiqc

comparison test-data/picard_MarkDuplicates.txt @ 0:3bad335ccea9 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc commit 264fd61d39f252ebb81731bf6cd3349fdb39b306
author iuc
date Tue, 24 Oct 2017 06:29:59 -0400
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-1:000000000000 0:3bad335ccea9
1 ## htsjdk.samtools.metrics.StringHeader
2 # 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
3 ## htsjdk.samtools.metrics.StringHeader
4 # Started on: Mon May 23 09:32:41 UTC 2016
5
6 ## METRICS CLASS picard.sam.DuplicationMetrics
7 LIBRARY UNPAIRED_READS_EXAMINED READ_PAIRS_EXAMINED UNMAPPED_READS UNPAIRED_READ_DUPLICATES READ_PAIR_DUPLICATES READ_PAIR_OPTICAL_DUPLICATES PERCENT_DUPLICATION ESTIMATED_LIBRARY_SIZE
8 Unknown Library 2900 313405 0 2257 629 0 0.005582 77973949
9
10 ## HISTOGRAM java.lang.Double
11 BIN VALUE
12 1.0 1
13 2.0 1.995989
14 3.0 2.987982
15 4.0 3.975997
16 5.0 4.960048
17 6.0 5.940152
18 7.0 6.916324
19 8.0 7.88858
20 9.0 8.856937
21 10.0 9.821409
22 11.0 10.782013
23 12.0 11.738763
24 13.0 12.691676
25 14.0 13.640766
26 15.0 14.586049
27 16.0 15.52754
28 17.0 16.465254
29 18.0 17.399207
30 19.0 18.329414
31 20.0 19.25589
32 21.0 20.178649
33 22.0 21.097706
34 23.0 22.013077
35 24.0 22.924776
36 25.0 23.832819
37 26.0 24.737218
38 27.0 25.63799
39 28.0 26.535149
40 29.0 27.428709
41 30.0 28.318684
42 31.0 29.20509
43 32.0 30.08794
44 33.0 30.967248
45 34.0 31.84303
46 35.0 32.715298
47 36.0 33.584068
48 37.0 34.449352
49 38.0 35.311166
50 39.0 36.169523
51 40.0 37.024436
52 41.0 37.875921
53 42.0 38.723989
54 43.0 39.568656
55 44.0 40.409935
56 45.0 41.247839
57 46.0 42.082382
58 47.0 42.913578
59 48.0 43.741439
60 49.0 44.565979
61 50.0 45.387212
62 51.0 46.205151
63 52.0 47.019809
64 53.0 47.831199
65 54.0 48.639334
66 55.0 49.444228
67 56.0 50.245893
68 57.0 51.044342
69 58.0 51.839588
70 59.0 52.631645
71 60.0 53.420524
72 61.0 54.206239
73 62.0 54.988802
74 63.0 55.768226
75 64.0 56.544524
76 65.0 57.317707
77 66.0 58.087789
78 67.0 58.854783
79 68.0 59.618699
80 69.0 60.379551
81 70.0 61.137352
82 71.0 61.892112
83 72.0 62.643845
84 73.0 63.392562
85 74.0 64.138276
86 75.0 64.880999
87 76.0 65.620743
88 77.0 66.357519
89 78.0 67.09134
90 79.0 67.822217
91 80.0 68.550163
92 81.0 69.275188
93 82.0 69.997306
94 83.0 70.716526
95 84.0 71.432862
96 85.0 72.146324
97 86.0 72.856924
98 87.0 73.564674
99 88.0 74.269585
100 89.0 74.971668
101 90.0 75.670935
102 91.0 76.367397
103 92.0 77.061066
104 93.0 77.751952
105 94.0 78.440066
106 95.0 79.12542
107 96.0 79.808025
108 97.0 80.487892
109 98.0 81.165032
110 99.0 81.839456
111 100.0 82.511174
112