What strategies and/or tools would you apply to find homozygous regions in the whole-exome sequencing data?

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Alessio Valentini

Michal: you may try sweep (http://www.broadinstitute.org/mpg/sweep/) from Pardis Sabeti, which finds the extended haplotype homozygosity (EHH) regions in a chromosome. It provides a lot of plots and visual info. Cheers

Hilal A'Shekaili

check this article: Carr et. al. 2012. Autozygosity Mapping with Exome Sequence Data. HUMAN MUTATION, Vol. 34, No. 1, 50–56.

it describes 2 programs devised to plot ROH's using whole-exome data