Mercurial > repos > devteam > picard
view test-data/picard_CollectGcBiasMetrics_test1.tab @ 24:b9fbec5ac6b2 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 9c268f08be6d363990a822fc941e031dd13be3f4
| author | iuc |
|---|---|
| date | Fri, 31 May 2019 03:21:52 -0400 |
| parents | 5053a18d9bc8 |
| children | 3f254c5ced1d |
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## htsjdk.samtools.metrics.StringHeader # CollectGcBiasMetrics CHART_OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_21.dat SUMMARY_OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_19.dat SCAN_WINDOW_SIZE=100 MINIMUM_GENOME_FRACTION=5.0E-5 IS_BISULFITE_SEQUENCED=true INPUT=picard_CollectGcBiasMetrics_bam OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_20.dat ASSUME_SORTED=true VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT REFERENCE_SEQUENCE=localref.fa METRIC_ACCUMULATION_LEVEL=[ALL_READS] ALSO_IGNORE_DUPLICATES=false STOP_AFTER=0 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json USE_JDK_DEFLATER=false USE_JDK_INFLATER=false ## htsjdk.samtools.metrics.StringHeader # Started on: Sat Apr 14 09:28:18 CEST 2018 ## METRICS CLASS picard.analysis.GcBiasDetailMetrics ACCUMULATION_LEVEL READS_USED GC WINDOWS READ_STARTS MEAN_BASE_QUALITY NORMALIZED_COVERAGE ERROR_BAR_WIDTH SAMPLE LIBRARY READ_GROUP All Reads ALL 0 0 118 20 0 0 All Reads ALL 1 0 0 0 0 0 All Reads ALL 2 0 0 0 0 0 All Reads ALL 3 0 0 0 0 0 All Reads ALL 4 0 0 0 0 0 All Reads ALL 5 0 0 0 0 0 All Reads ALL 6 0 0 0 0 0 All Reads ALL 7 0 0 0 0 0 All Reads ALL 8 0 0 0 0 0 All Reads ALL 9 0 0 0 0 0 All Reads ALL 10 0 0 0 0 0 All Reads ALL 11 0 0 0 0 0 All Reads ALL 12 0 0 0 0 0 All Reads ALL 13 0 0 0 0 0 All Reads ALL 14 0 0 0 0 0 All Reads ALL 15 0 0 0 0 0 All Reads ALL 16 0 0 0 0 0 All Reads ALL 17 0 0 0 0 0 All Reads ALL 18 0 0 0 0 0 All Reads ALL 19 0 0 0 0 0 All Reads ALL 20 0 0 0 0 0 All Reads ALL 21 0 0 0 0 0 All Reads ALL 22 0 0 0 0 0 All Reads ALL 23 0 0 0 0 0 All Reads ALL 24 2 0 0 0 0 All Reads ALL 25 15 0 0 0 0 All Reads ALL 26 13 0 0 0 0 All Reads ALL 27 18 0 0 0 0 All Reads ALL 28 50 5 21 4.843529 2.166092 All Reads ALL 29 47 0 0 0 0 All Reads ALL 30 63 0 0 0 0 All Reads ALL 31 97 4 20 1.997332 0.998666 All Reads ALL 32 167 3 23 0.870095 0.50235 All Reads ALL 33 178 4 22 1.088434 0.544217 All Reads ALL 34 225 8 22 1.722144 0.60887 All Reads ALL 35 291 5 22 0.832222 0.372181 All Reads ALL 36 391 1 21 0.123875 0.123875 All Reads ALL 37 506 4 24 0.382888 0.191444 All Reads ALL 38 570 0 0 0 0 All Reads ALL 39 640 0 0 0 0 All Reads ALL 40 729 0 0 0 0 All Reads ALL 41 846 1 24 0.057252 0.057252 All Reads ALL 42 1060 1 24 0.045694 0.045694 All Reads ALL 43 1182 13 22 0.532706 0.147746 All Reads ALL 44 1113 8 22 0.348142 0.123087 All Reads ALL 45 1161 7 20 0.29203 0.110377 All Reads ALL 46 1113 5 20 0.217589 0.097309 All Reads ALL 47 1035 8 23 0.374379 0.132363 All Reads ALL 48 956 9 23 0.455981 0.151994 All Reads ALL 49 913 1 24 0.053051 0.053051 All Reads ALL 50 785 5 22 0.308505 0.137968 All Reads ALL 51 607 5 22 0.398973 0.178426 All Reads ALL 52 436 104 22 11.553373 1.132901 All Reads ALL 53 354 13 23 1.778697 0.493322 All Reads ALL 54 288 0 0 0 0 All Reads ALL 55 232 6 21 1.252637 0.511387 All Reads ALL 56 133 0 0 0 0 All Reads ALL 57 108 2 24 0.89695 0.634239 All Reads ALL 58 65 0 0 0 0 All Reads ALL 59 38 0 0 0 0 All Reads ALL 60 29 0 0 0 0 All Reads ALL 61 10 0 0 0 0 All Reads ALL 62 2 0 0 0 0 All Reads ALL 63 0 0 0 0 0 All Reads ALL 64 0 0 0 0 0 All Reads ALL 65 0 0 0 0 0 All Reads ALL 66 0 0 0 0 0 All Reads ALL 67 0 0 0 0 0 All Reads ALL 68 0 0 0 0 0 All Reads ALL 69 0 0 0 0 0 All Reads ALL 70 0 0 0 0 0 All Reads ALL 71 0 0 0 0 0 All Reads ALL 72 0 0 0 0 0 All Reads ALL 73 0 0 0 0 0 All Reads ALL 74 0 0 0 0 0 All Reads ALL 75 0 0 0 0 0 All Reads ALL 76 0 0 0 0 0 All Reads ALL 77 0 0 0 0 0 All Reads ALL 78 0 0 0 0 0 All Reads ALL 79 0 0 0 0 0 All Reads ALL 80 0 0 0 0 0 All Reads ALL 81 0 0 0 0 0 All Reads ALL 82 0 0 0 0 0 All Reads ALL 83 0 0 0 0 0 All Reads ALL 84 0 0 0 0 0 All Reads ALL 85 0 0 0 0 0 All Reads ALL 86 0 0 0 0 0 All Reads ALL 87 0 0 0 0 0 All Reads ALL 88 0 0 0 0 0 All Reads ALL 89 0 0 0 0 0 All Reads ALL 90 0 0 0 0 0 All Reads ALL 91 0 0 0 0 0 All Reads ALL 92 0 0 0 0 0 All Reads ALL 93 0 0 0 0 0 All Reads ALL 94 0 0 0 0 0 All Reads ALL 95 0 0 0 0 0 All Reads ALL 96 0 0 0 0 0 All Reads ALL 97 0 0 0 0 0 All Reads ALL 98 0 0 0 0 0 All Reads ALL 99 0 0 0 0 0 All Reads ALL 100 0 0 0 0 0