view test-data/single_2019/output-report.csv @ 6:8e7e5a660942 draft

planemo upload for repository https://github.com/phac-nml/mykrobe-parser commit 077a66175f3666924b42f216bbcb671ee0d026f2

"file","Mykrobe_fabG1","Mykrobe_katG","Mykrobe_ahpC","Mykrobe_inhA","Mykrobe_ndh","Isoniazid_R_mutations","Isoniazid_Prediction","Mykrobe_rpoB","Rifampicin_R_mutations","Rifampicin_Prediction","Mykrobe_embB","Mykrobe_embA","Ethambutol_R_mutations","Ethambutol_Prediction","Mykrobe_pncA","Mykrobe_rpsA","Pyrazinamide_R_mutations","Pyrazinamide_Prediction","Mykrobe_Ofloxacin_gyrA","Ofloxacin_R_mutations","Ofloxacin_Prediction","Mykrobe_Moxifloxacin_gyrA","Moxifloxacin_R_mutations","Moxifloxacin_Prediction","Mykrobe_Ciprofloxacin_gyrA","Ciprofloxacin_R_mutations","Ciprofloxacin_Prediction","Mykrobe_rpsL","Mykrobe_Streptomycin_rrs","Mykrobe_Streptomycin_gid","Streptomycin_R_mutations","Streptomycin_Prediction","Mykrobe_Amikacin_rrs","Amikacin_R_mutations","Amikacin_Prediction","Mykrobe_Capreomycin_rrs","Mykrobe_Capreomycin_tlyA","Capreomycin_R_mutations","Capreomycin_Prediction","Mykrobe_Kanamycin_rrs","Mykrobe_Kanamycin_eis","Kanamycin_R_mutations","Kanamycin_Prediction","Lims_Comment","Lims_INTComment","Mykrobe_Workflow_Version","mykrobe_version","Mykrobe_Resistance_probe_set","Mykrobe_min_depth_default_5","Mykrobe_min_conf_default_10","LIMS_file","Mutation_set_version"
"ERR3335753_L1","No Mutation","No Mutation","No Mutation","No Mutation","No Mutation",NA,"S","L430P","rpoB_L430P-CTG761094CCG:190:5:14588","R","No Mutation","No Mutation",NA,"S","T389TG;G390GG;G391GG","No Mutation","pncA_T389TG-A2288853CA:43:131:1022__pncA_G390GG-C2288852CC:43:130:1055__pncA_G391GG-C2288851CC:43:130:1058","r","No Mutation",NA,"S","No Mutation",NA,"S","No Mutation",NA,"S","No Mutation","No Mutation","No Mutation",NA,"S","No Mutation",NA,"S","No Mutation","No Mutation",NA,"S","No Mutation","No Mutation",NA,"S","","","","v0.10.0","tb-hunt-probe-set-jan-03-2019.fasta.gz","5","10","",""