Mercurial > repos > nml > mykrobe_parser

comparison test-data/prediction_2019/data/SRR1710097_L2.json @ 6:8e7e5a660942 draft

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planemo upload for repository https://github.com/phac-nml/mykrobe-parser commit 077a66175f3666924b42f216bbcb671ee0d026f2
author nml
date Fri, 22 Sep 2023 17:24:02 +0000
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5:deebc6410d13 6:8e7e5a660942
1 {
2 "SRR1710097_L2": {
3 "susceptibility": {
4 "Ofloxacin": {
5 "predict": "S"
6 },
7 "Moxifloxacin": {
8 "predict": "S"
9 },
10 "Isoniazid": {
11 "predict": "S"
12 },
13 "Kanamycin": {
14 "predict": "S"
15 },
16 "Ethambutol": {
17 "predict": "S"
18 },
19 "Streptomycin": {
20 "predict": "S"
21 },
22 "Ciprofloxacin": {
23 "predict": "S"
24 },
25 "Pyrazinamide": {
26 "predict": "S"
27 },
28 "Rifampicin": {
29 "predict": "S"
30 },
31 "Amikacin": {
32 "predict": "S"
33 },
34 "Capreomycin": {
35 "predict": "S"
36 }
37 },
38 "phylogenetics": {
39 "phylo_group": {
40 "Mycobacterium_tuberculosis_complex": {
41 "percent_coverage": 99.686,
42 "median_depth": 420
43 }
44 },
45 "sub_complex": {
46 "Unknown": {
47 "percent_coverage": -1,
48 "median_depth": -1
49 }
50 },
51 "species": {
52 "Mycobacterium_tuberculosis": {
53 "percent_coverage": 98.909,
54 "median_depth": 403.0
55 }
56 },
57 "lineage": {
58 "Beijing_East_Asia": {
59 "percent_coverage": 100.0,
60 "median_depth": 391
61 }
62 }
63 },
64 "kmer": 21,
65 "probe_sets": [
66 "tb-species-170421.fasta.gz",
67 "tb-hunt-probe-set-jan-03-2019.fasta.gz"
68 ],
69 "files": [
70 "SRR1710097_1.fastq",
71 "SRR1710097_2.fastq"
72 ],
73 "version": {
74 "mykrobe-predictor": "v0.10.0",
75 "mykrobe-atlas": "v0.10.0"
76 },
77 "genotype_model": "kmer_count"
78 }
79 }