CHIAMO is a program for calling genotypes from the Affymetrix 500K Mapping chip. The program allows for multiple cohorts which have potentially different intensity characteristics that can lead to elevated false-positive rates in genome-wide studies. The underlying model has a hierarchical structure that allows for correlation between the parameters of each cohort.
Chris Spencer, Jonathan Marchini, Peter Donnelly, YY Teo
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J. Marchini, B. Howie, S. Myers, G. McVean and P. Donnelly (2007)
A new multipoint method for genome-wide association studies via imputation of genotypes.
Nature Genetics 39 : 906-913