Mercurial > repos > iuc > qualimap_multi_bamqc
comparison test-data/genome_results_outside_features.txt @ 0:16beb83e370c draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/qualimap commit b4d43001cc0caa14d760c347fa1c416929f769b2"
| author | iuc |
|---|---|
| date | Thu, 10 Oct 2019 17:40:15 -0400 |
| parents | |
| children |
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| -1:000000000000 | 0:16beb83e370c |
|---|---|
| 1 BamQC report | |
| 2 ----------------------------------- | |
| 3 | |
| 4 >>>>>>> Input | |
| 5 | |
| 6 bam file = /tmp/tmprT4oZK/files/6/4/1/dataset_6416c0ca-3ecd-4273-ae01-22f2ac60965d.dat | |
| 7 outfile = results/outside_results.txt | |
| 8 | |
| 9 | |
| 10 >>>>>>> Reference | |
| 11 | |
| 12 number of bases = 650 bp | |
| 13 number of contigs = 1 | |
| 14 | |
| 15 | |
| 16 >>>>>>> Globals | |
| 17 | |
| 18 number of windows = 325 | |
| 19 | |
| 20 number of reads = 100 | |
| 21 number of mapped reads = 100 (100%) | |
| 22 number of secondary alignments = 1 | |
| 23 | |
| 24 number of mapped bases = 6,214 bp | |
| 25 number of sequenced bases = 2,364 bp | |
| 26 number of aligned bases = 0 bp | |
| 27 number of duplicated reads (estimated) = 4 | |
| 28 duplication rate = 14.29% | |
| 29 | |
| 30 | |
| 31 >>>>>>> Globals outside | |
| 32 | |
| 33 regions size = 350 (53.85%) | |
| 34 number of mapped reads = 18 (18%) | |
| 35 | |
| 36 | |
| 37 >>>>>>> Insert size | |
| 38 | |
| 39 mean insert size = 0 | |
| 40 std insert size = 0 | |
| 41 median insert size = 0 | |
| 42 | |
| 43 | |
| 44 >>>>>>> Mapping quality | |
| 45 | |
| 46 mean mapping quality = 255 | |
| 47 | |
| 48 | |
| 49 >>>>>>> ACTG content | |
| 50 | |
| 51 number of A's = 667 bp (28.21%) | |
| 52 number of C's = 645 bp (27.28%) | |
| 53 number of T's = 512 bp (21.66%) | |
| 54 number of G's = 540 bp (22.84%) | |
| 55 number of N's = 0 bp (0%) | |
| 56 | |
| 57 GC percentage = 50.13% | |
| 58 | |
| 59 | |
| 60 >>>>>>> Mismatches and indels | |
| 61 | |
| 62 general error rate = 0.0021 | |
| 63 number of mismatches = 13 | |
| 64 | |
| 65 | |
| 66 >>>>>>> Coverage | |
| 67 | |
| 68 mean coverageData = 17.7543X | |
| 69 std coverageData = 16.4764X | |
| 70 | |
| 71 There is a 10.58% of reference with a coverageData >= 1X | |
| 72 There is a 10.58% of reference with a coverageData >= 2X | |
| 73 There is a 10.58% of reference with a coverageData >= 3X | |
| 74 There is a 10.58% of reference with a coverageData >= 4X | |
| 75 There is a 10.58% of reference with a coverageData >= 5X | |
| 76 There is a 10.58% of reference with a coverageData >= 6X | |
| 77 There is a 10.58% of reference with a coverageData >= 7X | |
| 78 There is a 10.58% of reference with a coverageData >= 8X | |
| 79 There is a 10.58% of reference with a coverageData >= 9X | |
| 80 There is a 10.58% of reference with a coverageData >= 10X | |
| 81 There is a 10.58% of reference with a coverageData >= 11X | |
| 82 There is a 10.58% of reference with a coverageData >= 12X | |
| 83 There is a 10.58% of reference with a coverageData >= 13X | |
| 84 There is a 10.58% of reference with a coverageData >= 14X | |
| 85 There is a 10.58% of reference with a coverageData >= 15X | |
| 86 There is a 10.58% of reference with a coverageData >= 16X | |
| 87 There is a 10.58% of reference with a coverageData >= 17X | |
| 88 There is a 10.58% of reference with a coverageData >= 18X | |
| 89 There is a 10.58% of reference with a coverageData >= 19X | |
| 90 There is a 10.58% of reference with a coverageData >= 20X | |
| 91 There is a 10.58% of reference with a coverageData >= 21X | |
| 92 There is a 10.58% of reference with a coverageData >= 22X | |
| 93 There is a 10.58% of reference with a coverageData >= 23X | |
| 94 There is a 10.58% of reference with a coverageData >= 24X | |
| 95 There is a 10.58% of reference with a coverageData >= 25X | |
| 96 There is a 10.58% of reference with a coverageData >= 26X | |
| 97 There is a 10.58% of reference with a coverageData >= 27X | |
| 98 There is a 10.58% of reference with a coverageData >= 28X | |
| 99 There is a 10.58% of reference with a coverageData >= 29X | |
| 100 There is a 10.58% of reference with a coverageData >= 30X | |
| 101 There is a 10.58% of reference with a coverageData >= 31X | |
| 102 There is a 10.1% of reference with a coverageData >= 32X | |
| 103 There is a 9.62% of reference with a coverageData >= 33X | |
| 104 There is a 9.13% of reference with a coverageData >= 34X | |
| 105 There is a 7.21% of reference with a coverageData >= 35X | |
| 106 There is a 5.29% of reference with a coverageData >= 36X | |
| 107 There is a 3.37% of reference with a coverageData >= 37X | |
| 108 There is a 1.44% of reference with a coverageData >= 38X | |
| 109 There is a 0.96% of reference with a coverageData >= 39X | |
| 110 There is a 0% of reference with a coverageData >= 40X | |
| 111 There is a 0% of reference with a coverageData >= 41X | |
| 112 There is a 0% of reference with a coverageData >= 42X | |
| 113 There is a 0% of reference with a coverageData >= 43X | |
| 114 There is a 0% of reference with a coverageData >= 44X | |
| 115 There is a 0% of reference with a coverageData >= 45X | |
| 116 There is a 0% of reference with a coverageData >= 46X | |
| 117 There is a 0% of reference with a coverageData >= 47X | |
| 118 There is a 0% of reference with a coverageData >= 48X | |
| 119 There is a 0% of reference with a coverageData >= 49X | |
| 120 There is a 0% of reference with a coverageData >= 50X | |
| 121 There is a 0% of reference with a coverageData >= 51X | |
| 122 | |
| 123 | |
| 124 >>>>>>> Coverage per contig | |
| 125 | |
| 126 test_chromosome 4424 6214 1.404611211573237 3.9981701358234454 | |
| 127 | |
| 128 |