get_stable_state_from_models_dir: Load the models stable state data
In emba: Ensemble Boolean Model Biomarker Analysis

Description Usage Arguments Value Examples

Use this function to merge the stable states from all boolean models into a single data.frame object. The models stable states are loaded from .gitsbe files that can be found inside the given models.dir directory.

1	get_stable_state_from_models_dir(models.dir, all.ss = FALSE)

`models.dir`	string. A directory with .gitsbe files/models. Do not include the ending path character in the string (/). Only files that include the string gitsbe are parsed.
`all.ss`	logical. Should all stable states be included in the returned object? Default value is FALSE (only the 1 stable state models are included).

The format of the returned object depends on the all.ss value. If:

all.ss is FALSE (default): a data.frame (nxm) with n models and m nodes. The row names specify the models names (taken from the file names without the gitsbe extension) whereas the column names specify the name of the network nodes (gene, proteins, etc.). Possible values for each model-node element are either 0 (inactive node) or 1 (active node). If a .gitsbe file/model has zero (0) or more than 1 stable states, a diagnostic message is printed and the corresponding model is discarded, i.e. it will not be included in the returned data.frame object.
all.ss is TRUE: a tibble object where each row stores a separate stable state and the columns correspond to network nodes (as before) with an extra last column that has the name of the model that produced that stable state. As such, models that have multiple stable states will occupy several rows with the last column having the same name/model. Models with no stable states are discarded.

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models.dir = system.file("extdata", "models", package = "emba", mustWork = TRUE)
models.stable.state = get_stable_state_from_models_dir(models.dir)
models.stable.state = get_stable_state_from_models_dir(models.dir, all.ss = TRUE)