Man pages for AliSajid/KINNET
Kinase INteraction NETwork Generation
| assign_kinases | Assign kinases, given a network and a chip type |
| assign_kinases_guided | Assign kinases, given a network and a chip type and... |
| candidate_kinases | Generate Candidate Kinases Based On Links |
| compare_kinased_graphs | Compare two kinased graphhs |
| default_parent | Return Parents/Children with a Usable Default |
| equalize_kinase_graphs | Equalize the nodesets of two kinased graphs |
| filter_peptides | Return a list of significant peptides |
| fit_standardized | Do a standardized fit of expression data from a single... |
| generate_posterior_probability_df | Generate Posterior probabilities given priors |
| generate_probability_matrix | Generate a Probability Matrix of observing a given... |
| generate_triad_links | Generate a Triad of Peptides Given A Network |
| get_intersections | Generate Intersections between kinases |
| kinnet_hamming | Calculate the Hamming Distance between two kinased graphs |
| kinnet_normalized_hamming | Calculate Normalized Hamming Distance |
| kinnet_normalized_shd | Calculate Normalized Structural Hamming Distance |
| kinnet_shd | Calculate the Structural Hamming Distance between two kinased... |
| make_model | Generate a bayes net model |
| PamchipData-class | The Pamchip Data Superclass |
| PamchipData_PTK | Process a file into a usable structure |
| PamchipData-PTK-class | A representation of the PamChip PTK Data |
| PamchipData_STK | Process a file into a usable structure |
| PamchipData-STK-class | A representation of the PamChip STK Data |
| posterior | Generate Posterior Probability of seeing a given... |
| process_parent_child_link | Filter list of kinases based on the parents and children |
| ptk_probability_matrix_gene | PTK Peptide to Kinase Probability Matrix for Gene Identifiers |
| ptk_probability_matrix_kinase | PTK Peptide to Kinase Probability Matrix for Kinase... |
| render_kinased_graph | Generate a kianse graph |
| render_reduced_kinased_graph | Generate a reduced kianse graph |
| safely_add_node | Add a node safely to a bn object |
| stk_accessors | STK Data Accessor Functions |
| stk_probability_matrix_gene | STK Peptide to Kinase Probability Matrix for Gene Identifiers |
| stk_probability_matrix_kinase | STK Peptide to Kinase Probability Matrix for Kinase... |
| subset_data | Subset The Kinome Data |
| update_probability_matrix | Calculated Updated Probabilities of each peptide/kinase pair |
