Mercurial > repos > devteam > picard

comparison test-data/picard_CollectWgsMetrics_test1.tab @ 3:52fdfc45590a draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 00a7926c285bc4a339bd7deebf40b28f39c7d947-dirty
author devteam
date Thu, 16 Jul 2015 15:32:31 -0400
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children 08f69add4d06
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2:93ace7e49295 3:52fdfc45590a
1 ## htsjdk.samtools.metrics.StringHeader
2 # picard.analysis.CollectWgsMetrics INPUT=/Users/anton/galaxy-central/database/files/000/dataset_773.dat OUTPUT=/Users/anton/galaxy-central/database/files/000/dataset_802.dat REFERENCE_SEQUENCE=localref.fa MINIMUM_MAPPING_QUALITY=20 MINIMUM_BASE_QUALITY=20 COVERAGE_CAP=250 VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT STOP_AFTER=-1 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false
3 ## htsjdk.samtools.metrics.StringHeader
4 # Started on: Tue Oct 07 15:46:29 EDT 2014
5
6 ## METRICS CLASS picard.analysis.CollectWgsMetrics$WgsMetrics
7 GENOME_TERRITORY MEAN_COVERAGE SD_COVERAGE MEDIAN_COVERAGE MAD_COVERAGE PCT_EXC_MAPQ PCT_EXC_DUPE PCT_EXC_UNPAIRED PCT_EXC_BASEQ PCT_EXC_OVERLAP PCT_EXC_CAPPED PCT_EXC_TOTAL PCT_5X PCT_10X PCT_15X PCT_20X PCT_25X PCT_30X PCT_40X PCT_50X PCT_60X PCT_70X PCT_80X PCT_90X PCT_100X
8 16568 2.915983 3.836089 2 2 0 0 0 0 0.008069 0 0.008069 0.240464 0.055831 0.02541 0.011045 0 0 0 0 0 0 0 0 0
9
10 ## HISTOGRAM java.lang.Integer
11 coverage count
12 0 5225
13 1 3010
14 2 1806
15 3 1333
16 4 1210
17 5 1247
18 6 672
19 7 468
20 8 361
21 9 311
22 10 210
23 11 95
24 12 78
25 13 52
26 14 69
27 15 64
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31 19 61
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