homogeneity_cost: Calculate homogeneity cost
In csiu/hmmpickr: Pick a ChromHMM model

Calculate the homogeneity cost of a model.

1	homogeneity_cost(x, is_model_file = TRUE)

`x`	Either the ChromHMM model file or emission probabilities loaded from `load_chromhmm_model(...)$emissions` or `load_chromhmm_emissions(...)`
`is_model_file`	Boolean; TRUE if `x` is the model file and FALSE if `x` is emission probabilities.

Calculated by D = sum[k=1 to K]{d_k}^2/K where d_k = sum[h=1 to H]{min(1-E_hk, E_hk)}.

model_file <-
  system.file("extdata", "model_roadmap18.txt",
              package="hmmpickr")

homogeneity_cost(model_file)

csiu/hmmpickr documentation built on May 14, 2019, 12:24 p.m.

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