MSU

Genotype Imputation


Juan P. Steibel

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Software

Data
SNP_chip
PRRSV
R Package for genotype imputation.

Summary
An interface package for genotype imputation, phasing and computation of genotyping accuracy..

Platforms: Linux

Requirements: R 2.14.1and newer

Dependencies: synbreed, epicalc, coda
This package uses BEAGLE that is installed by synbreed.

Authors: Juan P. Steibel,  Yvonne M. Badke

Contact: steibelj@msu.edu
Download and Run
tar.gz file containing package for installation (see README file and user guide for instructions)
Documentation
Genotype imputation vignette
statistical TagSNP selection vignette
Citation
Badke, Y.M.; Bates, R.O.; Ernst, C.W.; Schwab, C.; Fix, J.; Van Tasell C.V.P. and Steibel, J.P. Methods of tagSNP selection and other variables affecting imputation accuracy in swine. Badke et. BMC Genetics 2013, 14:8
To-do list
No major changes planned
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