Man pages for BTR
Training and Analysing Asynchronous Boolean Models
| 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. |
| BoolModel-class | An S4 class to represent a Boolean Model |
| BTR | BTR: A package for studying asynchronous Boolean models |
| calc_mscore | Calculating Boolean model score wrt to a dataset |
| calc_roc | Calculate precision, recall, f-score, accuracy and... |
| 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... |
| gen_two_rmodel_dag | Generate two random DAG Boolean models with a specified... |
| 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... |
| 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 |
