Working/Visualising Phased VCF files?

aeonsim

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Join Date: Jun 2011

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Working/Visualising Phased VCF files?

06-19-2013, 12:19 PM

Hi can any one recommend any software for working with Phased VCF files?

I've a complete 4 generation pedigree (Grandparents, Parents, Proband, Children) which I've phased using a couple of methods (GATK PhaseByTransmission, Beagle4). And I'm looking for a good way to visualize the flow of genotypes/haplotypes through the pedigree.

Programs that take in other formats would be welcome as well (assuming it's not too hard to convert VCF to there format).

Otherwise looks like I'll need to do some coding...

Thanks!
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jxchong

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Join Date: Feb 2013

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06-19-2013, 01:45 PM

I've never used it but this is in my bookmarks:

Tools

http://www.sanger.ac.uk/resources/software/olorin/

Wellcome Sanger Institute tools directory
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