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UnifiedGenotyping, HaplotypeCaller and PhasebyTrasmission

GiulianoGiuliano Posts: 3Member
edited February 2013 in Ask the GATK team

Hi to all

I began a variant analysis from 4 family related exome-seq samples in which a patology seems to be related to a polimorphism. I am just wondering which variant calling tools is better to use and if applying PhasebyTrasmission refinement is the correct way (in PhasebyTrasmission analysis does the read group that I assigned to bam file play a role in definition of the relation or I have to use just the ped file?).


Post edited by Geraldine_VdAuwera on

Best Answer


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