CHIAMO
CHIAMO is a program for calling genotypes from the Affymetrix 500K mapping chip.
The CHIAMO 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. The output files produced by CHIAMO feed directly into both the programs SNPTEST 2 and IMPUTE 4.
CHIAMO was used to call genotypes for the 7 genome-wide association studies carried out by the Wellcome Trust Case-Control Consortium (WTCCC).
The software is part of the Oxford genome-wide analysis software suite (OGWASS).
Commercial licence is available as whole or part of OGWASS.
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