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PASS variant being filtered out #12

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Akazhiel opened this issue Jul 1, 2021 · 1 comment
Open

PASS variant being filtered out #12

Akazhiel opened this issue Jul 1, 2021 · 1 comment

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@Akazhiel
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Akazhiel commented Jul 1, 2021

Hello!

I have a question regarding the vcf that the get command outputs in comparison to the .txt. I've noticed that I had two variants in the txt file both labelled as PASS but only one made it to the final VCF file. Why could this be? I'm attaching both txt and VCF files.
cancer.nanomonsv.result.txt
cancer.nanomonsv.result.vcf.gz

Best regards,
Jonatan
@friend1ws
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Hi, sorry for the late reply. I checked the code and it seems that there is a bug in the program that removes some of the insertions when converting the result.txt file to the vcf format. I will modify it as soon as possible. Thank again for the feedback!

@Akazhiel Akazhiel mentioned this issue Sep 23, 2021
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@friend1ws @Akazhiel