Mercurial > repos > iuc > tb_profiler_collate
view test-data/tbprofiler_test_1_sample.variants.csv @ 0:5b218b5eedb6 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/tb-profiler commit 7dba70c70c9fe33353a0fd21803b11cfddc42c32
| author | iuc |
|---|---|
| date | Tue, 21 Oct 2025 10:24:27 +0000 |
| parents | |
| children |
line wrap: on
line source
sample,gene_name,change,freq,type,drugs ERR2510682,gyrA,p.Ser91Pro,0.2916666666666667,missense_variant,levofloxacin;moxifloxacin ERR2510682,gyrA,p.Asp94Gly,0.6666666666666666,missense_variant,levofloxacin;moxifloxacin ERR2510682,rpoB,p.Ser450Leu,1.0,missense_variant,rifampicin ERR2510682,rpsL,p.Lys88Arg,1.0,missense_variant,streptomycin ERR2510682,inhA,c.-777C>T,1.0,upstream_gene_variant,ethionamide;isoniazid ERR2510682,katG,p.Ser315Thr,1.0,missense_variant,isoniazid ERR2510682,pncA,c.-11A>G,1.0,upstream_gene_variant,pyrazinamide ERR2510682,eis,c.-12C>T,1.0,upstream_gene_variant,kanamycin ERR2510682,embA,c.-12C>T,1.0,upstream_gene_variant,ethambutol ERR2510682,embB,p.Tyr334His,0.9111111111111111,missense_variant,ethambutol ERR2510682,gyrA,p.Glu21Gln,1.0,missense_variant,- ERR2510682,gyrA,p.Ser95Thr,1.0,missense_variant,- ERR2510682,gyrA,p.Gly668Asp,1.0,missense_variant,- ERR2510682,fgd1,c.960T>C,1.0,synonymous_variant,- ERR2510682,mshA,p.Ala187Val,1.0,missense_variant,- ERR2510682,ccsA,p.Ile245Met,1.0,missense_variant,- ERR2510682,Rv0565c,c.390G>A,1.0,synonymous_variant,- ERR2510682,Rv0565c,p.Arg110His,1.0,missense_variant,- ERR2510682,mmaA3,p.Cys286Val,0.11458333333333333,missense_variant,- ERR2510682,mmaA3,p.Arg37Gln,0.21,missense_variant,- ERR2510682,rpoB,c.3225T>C,0.9642857142857143,synonymous_variant,- ERR2510682,rpoC,p.Val483Gly,1.0,missense_variant,- ERR2510682,rpoC,p.Glu1092Asp,1.0,missense_variant,- ERR2510682,mmpL5,p.Ile948Val,1.0,missense_variant,- ERR2510682,mmpL5,p.Thr794Ile,1.0,missense_variant,- ERR2510682,mmpL5,p.Asp767Asn,1.0,missense_variant,- ERR2510682,mmpL5,c.1353A>G,0.1323529411764706,synonymous_variant,- ERR2510682,mmpS5,c.-710C>G,1.0,upstream_gene_variant,- ERR2510682,rpsL,c.-165T>C,1.0,upstream_gene_variant,- ERR2510682,Rv1129c,c.-28T>C,1.0,upstream_gene_variant,- ERR2510682,sigE,c.294G>A,1.0,synonymous_variant,- ERR2510682,Rv1258c,c.580_581insC,1.0,frameshift_variant,- ERR2510682,rrs,n.-187C>T,1.0,upstream_gene_variant,- ERR2510682,rrs,n.699C>A,0.22916666666666666,non_coding_transcript_exon_variant,- ERR2510682,rrs,n.700A>T,0.22448979591836735,non_coding_transcript_exon_variant,- ERR2510682,rrs,n.721G>A,0.19047619047619047,non_coding_transcript_exon_variant,- ERR2510682,rrs,n.726G>C,0.1951219512195122,non_coding_transcript_exon_variant,- ERR2510682,rrs,n.734G>C,0.14583333333333334,non_coding_transcript_exon_variant,- ERR2510682,rrs,n.948A>T,0.10714285714285714,non_coding_transcript_exon_variant,- ERR2510682,rrs,n.958T>A,0.11764705882352941,non_coding_transcript_exon_variant,- ERR2510682,rrs,n.1347A>G,0.1320754716981132,non_coding_transcript_exon_variant,- ERR2510682,rrs,n.1507C>T,0.14,non_coding_transcript_exon_variant,- ERR2510682,rrl,n.1497C>A,0.26666666666666666,non_coding_transcript_exon_variant,- ERR2510682,rrl,n.2824T>C,0.16071428571428573,non_coding_transcript_exon_variant,- ERR2510682,inhA,c.-853G>C,0.10526315789473684,upstream_gene_variant,- ERR2510682,inhA,c.-822C>G,0.24691358024691357,upstream_gene_variant,- ERR2510682,rpsA,c.636A>C,1.0,synonymous_variant,- ERR2510682,tsnR,p.Leu232Pro,1.0,missense_variant,- ERR2510682,tlyA,c.33A>G,0.8571428571428571,synonymous_variant,- ERR2510682,ndh,c.168C>T,0.13953488372093023,synonymous_variant,- ERR2510682,katG,p.Arg463Leu,1.0,missense_variant,- ERR2510682,katG,c.-507C>G,1.0,upstream_gene_variant,- ERR2510682,PPE35,c.2748G>C,0.20588235294117646,synonymous_variant,- ERR2510682,PPE35,c.2745A>C,0.18421052631578946,synonymous_variant,- ERR2510682,PPE35,p.Leu896Ser,1.0,missense_variant,- ERR2510682,PPE35,p.Ala883Gly,0.16326530612244897,missense_variant,- ERR2510682,PPE35,c.2646A>C,0.16,synonymous_variant,- ERR2510682,PPE35,c.1344A>G,0.1320754716981132,synonymous_variant,- ERR2510682,PPE35,c.1341C>G,0.10909090909090909,synonymous_variant,- ERR2510682,PPE35,c.1320T>C,0.16666666666666666,synonymous_variant,- ERR2510682,PPE35,p.Leu237Phe,0.2222222222222222,missense_variant,- ERR2510682,PPE35,p.Asn235Tyr,0.18867924528301888,missense_variant,- ERR2510682,PPE35,p.Leu189Val,0.2692307692307692,missense_variant,- ERR2510682,PPE35,p.Thr187Ser,0.2916666666666667,missense_variant,- ERR2510682,PPE35,p.Ser156Ala,0.46153846153846156,missense_variant,- ERR2510682,Rv1979c,c.-129A>G,1.0,upstream_gene_variant,- ERR2510682,kasA,p.Lys232Arg,0.16666666666666666,missense_variant,- ERR2510682,ald,c.-32T>C,1.0,upstream_gene_variant,- ERR2510682,ald,p.Ala238Asp,1.0,missense_variant,- ERR2510682,Rv3236c,c.888C>T,1.0,synonymous_variant,- ERR2510682,Rv3236c,p.Thr102Ala,1.0,missense_variant,- ERR2510682,mtrB,p.Met517Leu,1.0,missense_variant,- ERR2510682,mtrB,p.Pro18Ser,1.0,missense_variant,- ERR2510682,alr,c.-198C>A,0.19117647058823528,upstream_gene_variant,- ERR2510682,clpC1,p.Glu643Asp,0.1111111111111111,missense_variant,- ERR2510682,clpC1,p.Tyr331His,0.15517241379310345,missense_variant,- ERR2510682,clpC1,c.975C>G,0.18518518518518517,synonymous_variant,- ERR2510682,clpC1,c.648C>T,0.23684210526315788,synonymous_variant,- ERR2510682,embC,c.2781C>T,1.0,synonymous_variant,- ERR2510682,embA,c.228C>T,1.0,synonymous_variant,- ERR2510682,aftB,p.Asp397Gly,1.0,missense_variant,- ERR2510682,whiB6,c.-75delG,1.0,upstream_gene_variant,- ERR2510682,whiB6,c.-211C>T,1.0,upstream_gene_variant,- ERR2510682,gid,c.615A>G,1.0,synonymous_variant,- ERR2510682,gid,p.Glu92Asp,1.0,missense_variant,-