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Update EXCODE model by setting baseline states in surv_ts

compute_baseline_state.Rd

Fits a quasi-Poisson GLM using the **background formula** stored in excode_multistate@emission@excode_formula@formula_bckg on the data found in excode_multistate@emission@excode_formula@surv_ts (optionally augmented with covariates from @data if present), computes Anscombe residuals, and **writes** a state column back into @surv_ts: entries are 0 when residuals are below weights_threshold_baseline (or the observed count is 0), and NA otherwise. Returns the updated excodeModel.

Usage

compute_baseline_state(excode_multistate, weights_threshold_baseline = 1)

Arguments

excode_multistate

An excodeModel returned by init_excode() with a "MultiState" emission.

weights_threshold_baseline

Numeric residual cutoff; residuals strictly below this threshold are labeled baseline (0). Default 1.

Value

The **updated** excodeModel with excode_multistate@emission@excode_formula@surv_ts$state set.