GUI for VCF filtration

Question

[Manuel]

Hi,

what would be good tool choices for filtering VCF files graphically (IOW: usable for a biologist/clinician)? Does any handle smallish cohorts of unrelated invidiuals?

Thanks,

Answer 1

[JC]

Qiagen IVA is nice (not free)

[GenoMax]

I think you meant to point to Ingenuity Variant Analysis (IVA) which is a different tool. There is also VarSeq and SN/Variation Suite from DNAHelix. Neither are free.

[JC]

Thanks, that is the one.

Answer 2

[Pierre Lindenbaum]

see:

• CuteVariant : A GUI to filter VCF file
• GUI filtering annotated vcf
• opensource grafical user interface for filtering millions of annotated variant
• User Friendly VCF Filtering Tools
• galaxy
• I also wrote https://www.biorxiv.org/content/10.1101/120196v1 but it requires java jfx.