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J35P312 / SVDB

structural variant database software
MIT License
38 stars 16 forks source link

Only keep one INFO field #67

Open Akazhiel opened 1 year ago

Akazhiel commented 1 year ago

Hello,

I'd like to ask if there is a way of only keeping one INFO field when merging VCFs, meaning if there is a variant that is found by 2 different callers, only keep the INFO field of the 1st caller?

Also, has there been any changes on speed runtime? For some reason I'm trying to merge VCFs with the new version, without any changes in my VCFs and is going from some mins to a few hours.

Best regards,

Jonatan

J35P312 commented 1 year ago

Hello! So far, there is not! The only solution right now would be to make a custom script, that extracts the "{}_INFO=" entry for the caller of interest. But I agree, it would be a nice feature, sometimes SVDB merge is a bit too "generous"!

Not to my knowledge! But we have done some minor updates.... I will have a look, what version completes in a few minutes? I will try to replicate and see what is going on.

//Jesper