Mercurial > repos > nml > mykrobe_parser

annotate test-data/prediction_2019/data/ERR266106_MCAN.json @ 7:12b397ad8687 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/phac-nml/mykrobe-parser commit 97945a3ad655f1a0f99f577d0d423124460d900a
author nml
date Tue, 24 Oct 2023 21:28:06 +0000
parents 8e7e5a660942
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
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8e7e5a660942 planemo upload for repository https://github.com/phac-nml/mykrobe-parser commit 077a66175f3666924b42f216bbcb671ee0d026f2
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1 {
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2 "ERR266106_MCAN": {
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5 "predict": "S"
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6 },
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7 "Moxifloxacin": {
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8 "predict": "S"
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9 },
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11 "predict": "S"
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14 "predict": "S"
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17 "predict": "S"
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20 "predict": "S"
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23 "predict": "S"
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24 },
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26 "predict": "R",
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27 "called_by": {
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29 "variant": null,
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34 "genotype_likelihoods": [
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39 "info": {
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40 "coverage": {
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48 "alternate": {
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52 "kmer_count": 2016,
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54 }
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61 "conf": 12285
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63 "_cls": "Call.VariantCall"
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65 }
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68 "predict": "S"
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69 },
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71 "predict": "S"
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72 },
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73 "Capreomycin": {
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74 "predict": "S"
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75 }
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76 },
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77 "phylogenetics": {
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78 "phylo_group": {
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79 "Mycobacterium_tuberculosis_complex": {
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80 "percent_coverage": 98.352,
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81 "median_depth": 100
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82 }
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83 },
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84 "sub_complex": {
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85 "Unknown": {
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88 }
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89 },
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90 "species": {
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91 "Mycobacterium_tuberculosis": {
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92 "percent_coverage": 73.899,
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93 "median_depth": 92.0
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94 }
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95 },
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96 "lineage": {
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97 "Mycobacterium_tuberculosis_subsp_canettii": {
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98 "percent_coverage": 63.718,
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99 "median_depth": 94.0
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100 }
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101 }
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102 },
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103 "kmer": 21,
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104 "probe_sets": [
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105 "tb-species-170421.fasta.gz",
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106 "tb-hunt-probe-set-jan-03-2019.fasta.gz"
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107 ],
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108 "files": [
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109 "ERR266106_1.fastq",
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110 "ERR266106_2.fastq"
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111 ],
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112 "version": {
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113 "mykrobe-predictor": "v0.10.0",
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114 "mykrobe-atlas": "v0.10.0"
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115 },
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116 "genotype_model": "kmer_count"
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117 }
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118 }