PT  - JOURNAL ARTICLE
AU  - Berke Ç. Toptaş
AU  - Goran Rakocevic
AU  - Péter Kómár
AU  - Deniz Kural
TI  - Comparing complex variants in family trios
AID  - 10.1101/253492
DP  - 2018 Jan 01
TA  - bioRxiv
PG  - 253492
4099  - http://biorxiv.org/content/early/2018/01/24/253492.short
4100  - http://biorxiv.org/content/early/2018/01/24/253492.full
AB  - Motivation: Several tools exist to count Mendelian violations in family trios by comparing variants at the same genomic positions. This naive variant comparison however, fails to assess regions where multiple variants need to be examined together, resulting in reduced accuracy of existing Mendelian violation checking tools.Results: We introduce VBT, a trio concordance analysis tool, that identifies Mendelian violations by approximately solving the 3-way variant matching problem to resolve variant representation differences in family trios. We show that VBT outperforms previous trio comparison methods by accuracy.Availability: VBT is implemented in C++ and source code is available under GNU GPLv3 license at the following URL: https://github.com/sbg/VBT-TrioAnalysis.gitContact: cagkantoptas{at}hotmail.comSupplementary information: Supplementary materials are available at Biorxiv.