Preprocessing - Initialize matrix of latent states
This function takes a matrix of CGH data as the only argument and returns a crude estimate of the corresponding latent copy number states.
Matrix of aCGH data
Vector of threshold used to estimate the latent states
Given as argument a vector of threshold bounds the function simply applies the thresholding to the data and groups them into four subsets. Each subset is associated to a specific latent state.
Return a matrix of estimated latent states, that could be used as input of the main function.
Cassese A, Guindani M, Tadesse M, Falciani F, Vannucci M. A hierarchical Bayesian model for inference of copy number variants and their association to gene expression. Annals of Applied Statistics, 8(1), 148-175.
Cassese A, Guindani M, Vannucci M. A Bayesian integrative model for genetical genomics with spatially informed variable selection. Cancer Informatics.
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