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arq5x / gemini

a lightweight db framework for exploring genetic variation.
http://gemini.readthedocs.org
MIT License
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VCF GT and FT fields #894

Open marivalen opened 6 years ago

marivalen commented 6 years ago

Hi,

I have two questions:

1) I noticed that gemini infers the gt_types from the GT field and then uses its own annotation. Is there an option to stop gemini from doing this and having the gt_types be the GT field is left as is in the VCF file? or could it be possible to have a new variable that is just the raw GT without any change?

2) Is the FT field described in any column currently? If not, is there a way that I can add this annotation into my gemini database?

Thank you!

marivalen commented 6 years ago

Hi,

Same for the fields PGT and PID from the format fields. Is there any way to include them into gemini?

Thank you!