GEDI 1.03 – Genotype Error Detection & Imputation

GEDI 1.03

:: DESCRIPTION

GEDI package provides methods for

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* error detection in whole-genome SNP genotype data
* recovery of missing SNP genotypes
* imputation of genotypes at untyped SNPs based on reference haplotypes such as those provided by the Hapmap project
* genotype phasing through a copy of our highly scalable ENT algorithm.

GEDI handles genotype data from unrelated individuals as well as individuals related by simple pedigrees such as trios. GEDI computations rely on efficient likelihood computations based on a Hidden Markov Model of haplotype diversity in the population under study.

::DEVELOPER

Bioinformatics Lab , Computer Science & Engineering Dept. University of Connecticut

:: SCREENSHOTS

Command Line

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

GEDI

:: MORE INFORMATION

Citation:

J. Kennedy and I.I. Mandoiu and B. Pasaniuc,
Genotype Error Detection using Hidden Markov Models of Haplotype Diversity,
Journal of Computational Biology 15, pp. 1155-1171, 2008,

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