Mercurial > repos > nml > mykrobe_parser
diff test-data/prediction_2019/data/ERR031480_L6.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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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/prediction_2019/data/ERR031480_L6.json Fri Sep 22 17:24:02 2023 +0000 @@ -0,0 +1,79 @@ +{ + "ERR031480_L6": { + "susceptibility": { + "Ofloxacin": { + "predict": "S" + }, + "Moxifloxacin": { + "predict": "S" + }, + "Isoniazid": { + "predict": "S" + }, + "Kanamycin": { + "predict": "S" + }, + "Ethambutol": { + "predict": "S" + }, + "Streptomycin": { + "predict": "S" + }, + "Ciprofloxacin": { + "predict": "S" + }, + "Pyrazinamide": { + "predict": "S" + }, + "Rifampicin": { + "predict": "S" + }, + "Amikacin": { + "predict": "S" + }, + "Capreomycin": { + "predict": "S" + } + }, + "phylogenetics": { + "phylo_group": { + "Mycobacterium_tuberculosis_complex": { + "percent_coverage": 99.776, + "median_depth": 136.0 + } + }, + "sub_complex": { + "Unknown": { + "percent_coverage": -1, + "median_depth": -1 + } + }, + "species": { + "Mycobacterium_africanum": { + "percent_coverage": 89.738, + "median_depth": 167 + } + }, + "lineage": { + "West_Africa": { + "percent_coverage": 100.0, + "median_depth": 110 + } + } + }, + "kmer": 21, + "probe_sets": [ + "tb-species-170421.fasta.gz", + "tb-hunt-probe-set-jan-03-2019.fasta.gz" + ], + "files": [ + "ERR031480_1.fastq", + "ERR031480_2.fastq" + ], + "version": { + "mykrobe-predictor": "v0.10.0", + "mykrobe-atlas": "v0.10.0" + }, + "genotype_model": "kmer_count" + } +}