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arXiv · 1306.2243

mendelFix: a Perl script for checking Mendelian errors in high density SNP data of trio designs

Yuri Tani Utsunomiya·Rodrigo Vitorio Alonso·Adriana Santana do Carmo·Francine Campagnari·José Antonio Vinsintin·José Fernando Garcia
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Abstract

Here we present mendelFix, a Perl script for checking Mendelian errors in genome-wide SNP data of trio designs. The program takes 12-recoded PLINK PED and MAP files as input to calculate a series of summary statistics for Mendelian errors, sets missing offspring genotypes that present Mendelian inconsistencies, and implements a simplistic procedure to infer missing genotypes using parent information. The program can be easily incorporated in any pipeline for family-based SNP data analysis, and is distributed as free software under the GNU General Public License.

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Yuri Tani Utsunomiya, Rodrigo Vitorio Alonso, Adriana Santana do Carmo, Francine Campagnari, José Antonio Vinsintin, José Fernando Garcia. 2013-06-10. mendelFix: a Perl script for checking Mendelian errors in high density SNP data of trio designs. https://arxiv.org/abs/1306.2243

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