BTR                     BTR: A package for studying asynchronous
                        Boolean models
BoolModel-class         An S4 class to represent a Boolean Model
amat_to_bm              Convert adjacency matrix into BoolModel object
bm_to_amat              Convert BoolModel into adjacency matrix
bm_to_df                Convert BoolModel object into BoolNet readable
                        data frame
bon_bmodel              HSC Boolean Model from Bonzanni et al.
bon_istate              Initial state from Bonzanni et al.
calc_mscore             Calculating Boolean model score wrt to a
                        dataset
calc_roc                Calculate precision, recall, f-score, accuracy
                        and specificity
check_and               Check if containing AND terms
compress_bmodel         Compress BoolModel
decompress_bmodel       Decompress BoolModel
decreate_boolmodel      Decreate Boolean model
df_to_bm                Convert a data frame into BoolModel object
emodel1                 Example Boolean Model used in the vignette
emodel2                 Example Boolean Model used in the vignette
emodel3                 Example Boolean Model used in the vignette
eval_bool               Evaluating Boolean rules
extract_term            Extract Boolean terms
filter_dflist           Filter columns of df in a list
gen_one_rmodel          Generate a random Boolean model
gen_singlerule          Generate random act and inh rule for a single
                        gene
gen_two_rmodel          Generate two random Boolean models with a
                        specified number of steps apart
gen_two_rmodel_dag      Generate two random DAG Boolean models with a
                        specified number of steps apart
get_encodings           Get corresponding encodings for compression or
                        decompression.
grow_bmodel             Add extra genes to a Boolean model
initialise_data         Initialise data
initialise_model        Initialise model
initialise_raw_data     Initialise raw data
krum_bmodel             Myeloid Boolean Model from Krumsiek et al.
krum_istate             Initial state from Krumsiek et al.
man_dist                Calculates pairwise Manhattan distances between
                        two matrices
match_term              Check for matching terms
minmod_internal         Inner function of minimal modification of whole
                        Boolean model
minmod_model            Minimal modification of whole Boolean model
model_consensus         Intersection of genes
model_dist              Calculate distance between Boolean models
model_setdiff           Find the set difference between two Boolean
                        models
model_train             Training Model
outgenysis_model        Output a Boolean Model into Genysis readable
                        format
outgraph_model          Output a Boolean Model into Cytoscape & Gephi
                        readable format
outstate_graph          Generate state transition graph
plotBM                  Plot Boolean Model
printBM                 Print Boolean Model
rcpp_simulate           Simulate a Boolean model.
rcpp_validate           Calculating validation scores between two
                        adjacency matrices
simulate_model          Simulating Boolean model
unique_raw_data         Remove raw data duplicated wrt to the model
                        state
validate_adjmat         Calculate true positive, true negative, false
                        positive and false negative
vcat                    Verbose cat
which.random.min        Pick a random minimum value
wilson_raw_data         Raw single cell qRT-PCR expression data from
                        Wilson et al.
wilson_raw_rnaseq       Raw single cell RNAseq expression data from
                        Wilson et al.
writeBM                 Write Boolean Model
