Mercurial > repos > nml > mykrobe_parser
comparison test-data/prediction_2019/data/ERR234162_L3.json @ 6:8e7e5a660942 draft
planemo upload for repository https://github.com/phac-nml/mykrobe-parser commit 077a66175f3666924b42f216bbcb671ee0d026f2
author | nml |
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date | Fri, 22 Sep 2023 17:24:02 +0000 |
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5:deebc6410d13 | 6:8e7e5a660942 |
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1 { | |
2 "ERR234162_L3": { | |
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": 99.797, | |
42 "median_depth": 157.0 | |
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": 99.33, | |
54 "median_depth": 142.0 | |
55 } | |
56 }, | |
57 "lineage": { | |
58 "Delhi_Central_Asia": { | |
59 "percent_coverage": 100.0, | |
60 "median_depth": 182 | |
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 "ERR234162_1.fastq", | |
71 "ERR234162_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 } |