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bioinformatics-centre / BayesTyper

A method for variant graph genotyping based on exact alignment of k-mers
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A question about VCF format of results from the 'genotype' function. #40

Open zhiyongli1995 opened 2 years ago

zhiyongli1995 commented 2 years ago

Hi, 

When I check my results from the 'genotype' function. There are many "*" symbols in the ALT column. I want to know why it is present here, and if it is biologically meaningful?

Looking forward to your reply! Best regards!

Example of my question:

chr1    42842   .       T       TT,*  
chr1    42969   .       A       AA,*  
chr1    42993   .       G       GT,*  
chr1    43026   .       TA      T,*   
chr1    43090   .       C       CA,*  
chr1    43333   .       TC      T,*   
chr1    43450   .       AA      A,*   
chr1    43459   .       TA      T,*   
chr1    43488   .       TA      T,*   
chr1    43491   .       A       AGG,* 
chr1    43631   .       TT      T,*   
chr1    43684   .       A       AA,*  
chr1    43709   .       C       CT,*
janawold1 commented 2 years ago

Hey @zhiyongli1995, I know it's been a while but I think this post answers your question?