annotate test-data/collectGcBias_data.txt @ 11:e18704835dfd draft

Updated from github with appropriate url
author engineson
date Fri, 07 Jul 2017 07:56:04 -0400
parents 8f25feb85166
children
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1 ## htsjdk.samtools.metrics.StringHeader
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2 # picard.analysis.CollectGcBiasMetrics CHART_OUTPUT=/omaha-beach/cloud_26/files/000/dataset_195.dat SUMMARY_OUTPUT=/omaha-beach/cloud_26/files/000/dataset_193.dat WINDOW_SIZE=100 MINIMUM_GENOME_FRACTION=5.0E-5 IS_BISULFITE_SEQUENCED=true INPUT=/omaha-beach/cloud_26/files/000/dataset_114.dat OUTPUT=/omaha-beach/cloud_26/files/000/dataset_194.dat ASSUME_SORTED=true VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT REFERENCE_SEQUENCE=localref.fa METRIC_ACCUMULATION_LEVEL=[ALL_READS] STOP_AFTER=0 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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3 ## htsjdk.samtools.metrics.StringHeader
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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4 # Started on: Mon May 23 09:32:30 UTC 2016
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5
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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6 ## METRICS CLASS picard.analysis.GcBiasDetailMetrics
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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7 ACCUMULATION_LEVEL GC WINDOWS READ_STARTS MEAN_BASE_QUALITY NORMALIZED_COVERAGE ERROR_BAR_WIDTH SAMPLE LIBRARY READ_GROUP
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8 All Reads 0 0 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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9 All Reads 1 0 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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10 All Reads 2 0 0 0 0 0
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11 All Reads 3 10 0 0 0 0
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12 All Reads 4 7 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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13 All Reads 5 6 0 0 0 0
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14 All Reads 6 4 0 0 0 0
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15 All Reads 7 9 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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16 All Reads 8 22 0 0 0 0
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17 All Reads 9 15 0 0 0 0
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18 All Reads 10 20 0 0 0 0
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19 All Reads 11 18 0 0 0 0
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20 All Reads 12 101 0 0 0 0
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21 All Reads 13 118 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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22 All Reads 14 137 1 20 0.110575 0.110575
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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23 All Reads 15 243 4 19 0.249362 0.124681
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24 All Reads 16 366 10 21 0.4139 0.130887
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25 All Reads 17 468 9 24 0.291322 0.097107
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26 All Reads 18 689 25 24 0.549664 0.109933
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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27 All Reads 19 1087 40 26 0.557451 0.088141
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28 All Reads 20 2152 95 25 0.668741 0.068611
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29 All Reads 21 3279 127 23 0.586731 0.052064
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30 All Reads 22 5106 178 23 0.528099 0.039583
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31 All Reads 23 7817 319 23 0.618197 0.034612
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32 All Reads 24 11933 630 24 0.799774 0.031864
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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33 All Reads 25 17449 759 25 0.658943 0.023918
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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34 All Reads 26 25272 1414 26 0.847591 0.02254
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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35 All Reads 27 34926 1806 25 0.783331 0.018433
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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36 All Reads 28 48489 2889 26 0.90257 0.016792
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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37 All Reads 29 64950 4285 26 0.99942 0.015268
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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38 All Reads 30 84452 5453 26 0.978142 0.013246
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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39 All Reads 31 107535 6476 26 0.912291 0.011337
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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40 All Reads 32 134982 7953 26 0.892548 0.010008
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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41 All Reads 33 165941 9475 26 0.864972 0.008886
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42 All Reads 34 199087 11437 26 0.870253 0.008137
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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43 All Reads 35 233144 12856 26 0.83533 0.007367
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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44 All Reads 36 266049 14918 26 0.849426 0.006955
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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45 All Reads 37 298999 17019 26 0.862265 0.00661
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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46 All Reads 38 327958 20230 26 0.934446 0.00657
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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47 All Reads 39 350801 22684 26 0.97957 0.006504
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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48 All Reads 40 369841 23670 26 0.969527 0.006302
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49 All Reads 41 383262 25527 26 1.008975 0.006315
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50 All Reads 42 392470 26131 25 1.008617 0.006239
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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51 All Reads 43 395234 25603 25 0.981326 0.006133
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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52 All Reads 44 392428 26425 25 1.020074 0.006275
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53 All Reads 45 386569 25213 25 0.988039 0.006222
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54 All Reads 46 376763 25980 25 1.044594 0.006481
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55 All Reads 47 363422 24801 25 1.033795 0.006564
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56 All Reads 48 348339 24838 25 1.080167 0.006854
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57 All Reads 49 331960 24992 24 1.140491 0.007214
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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58 All Reads 50 315781 23793 24 1.141405 0.0074
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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59 All Reads 51 297249 22601 24 1.151818 0.007662
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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60 All Reads 52 278159 19653 24 1.070317 0.007635
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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61 All Reads 53 263713 19395 24 1.114127 0.008
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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62 All Reads 54 247317 19047 24 1.166673 0.008453
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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63 All Reads 55 230663 17922 23 1.177023 0.008792
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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64 All Reads 56 215458 16244 23 1.142107 0.008961
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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65 All Reads 57 198515 14904 23 1.137329 0.009316
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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66 All Reads 58 180718 13720 23 1.150083 0.009819
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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67 All Reads 59 165914 11940 23 1.090179 0.009977
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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68 All Reads 60 152561 10775 23 1.069917 0.010307
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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69 All Reads 61 138857 9746 23 1.063249 0.01077
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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70 All Reads 62 125804 9067 22 1.091807 0.011466
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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71 All Reads 63 112222 7148 22 0.964902 0.011413
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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72 All Reads 64 99218 6056 23 0.924638 0.011882
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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73 All Reads 65 85414 5612 24 0.995326 0.013286
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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74 All Reads 66 72999 4286 23 0.88943 0.013586
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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75 All Reads 67 61396 3631 23 0.895907 0.014868
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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76 All Reads 68 52109 3341 22 0.971271 0.016804
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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77 All Reads 69 45121 2735 21 0.918238 0.017558
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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78 All Reads 70 38925 1675 21 0.651873 0.015928
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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79 All Reads 71 32225 1053 22 0.495008 0.015254
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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80 All Reads 72 27537 721 22 0.396639 0.014772
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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81 All Reads 73 23481 483 22 0.311607 0.014179
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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82 All Reads 74 20300 423 22 0.315661 0.015348
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
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diff changeset
83 All Reads 75 17785 245 22 0.208684 0.013332
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
84 All Reads 76 15846 236 22 0.225615 0.014686
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
85 All Reads 77 13683 230 22 0.254638 0.01679
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
86 All Reads 78 11733 217 23 0.280174 0.019019
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
87 All Reads 79 10547 188 22 0.270026 0.019694
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
88 All Reads 80 9314 151 22 0.245594 0.019986
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
89 All Reads 81 7659 149 23 0.294707 0.024143
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
90 All Reads 82 5813 56 25 0.145937 0.019502
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
91 All Reads 83 4687 46 23 0.148676 0.021921
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
92 All Reads 84 3505 18 23 0.077797 0.018337
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
93 All Reads 85 2385 8 23 0.050813 0.017965
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
94 All Reads 86 1424 5 21 0.053191 0.023788
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
95 All Reads 87 859 3 20 0.052906 0.030545
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
96 All Reads 88 529 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
97 All Reads 89 411 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
98 All Reads 90 348 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
99 All Reads 91 138 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
100 All Reads 92 40 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
101 All Reads 93 7 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
102 All Reads 94 7 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
103 All Reads 95 12 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
104 All Reads 96 17 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
105 All Reads 97 8 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
106 All Reads 98 9 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
107 All Reads 99 5 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
108 All Reads 100 30 0 0 0 0
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
109
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
110