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Difference between vcf-result and "samtools tview"
I am calling mutation contained in the genes brca1/brca2 with haplotypecaller.
I use "samtools tview" to check if the result is right.
Cite a deletion site as the example,I got the result as the following picture:
After counting all the "*" signals, the number is less than the that contained in the vcf file.
(the number in the red frame in the picture.)
In my opinion,this number should smaller or equal to that the samtools-tview-counting reslult,
Could you please help me to solve this problem,Thanks.