extract and cleanup the regulon collection correpsonding to the desired penalty
Usage
prepare_regulon_df(
reaction_set_list_merged,
penalty,
filter_imbalance = c(0, 1)
)Arguments
- reaction_set_list_merged
a metabolic-enzyme set collections, as returned by the condense_metabolite_set function
- penalty
numeric, the index of the reaction_set_list_merged corresponding to the desired penalty
- filter_imbalance
a vector of two numbers, representing the lower and upper bounds to filter imbalanced reaction trees. for example c(0.33,0.67) will filter out any reaction were the upstream branch is longer than 2 time the length of the downstream branch, and vice versa