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GQ field type mismatch in pileup.vcf (Float vs header Integer)

Open sloth-eat-pudding opened this issue 7 months ago • 1 comments

I noticed that in pileup.vcf, the GQ field values are of type Float, while the VCF header defines them as Integer. This issue does not occur in the final output.vcf. I tested this with version v0.4.1 using the models ont_r10_dorado_sup_5khz_ssrs and ont_r10_dorado_sup_5khz_ss.

Header

##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype quality">

Body

chr1    11720   .       T       C       0.5155  PASS    FAU=0;FCU=1;FGU=0;FTU=3;RAU=0;RCU=2;RGU=0;RTU=12        GT:GQ:DP:AF:AD:NAF:NDP:NAD:AU:CU:GU:TU:NAU:NCU:NGU:NTU  0/1:0.5155:18:0.1667:0,3:0.0172:58:0,1:0:3:0:15:0:1:0:57

sloth-eat-pudding avatar Aug 29 '25 02:08 sloth-eat-pudding

@sloth-eat-pudding

Thanks for report! Will fix in next release!

zhengzhenxian avatar Aug 29 '25 07:08 zhengzhenxian