Man pages for zhenkewu/rewind
Reconstructing Etiology with Binary Decomposition
| bin2dec_vec | convert binary codes to decimal integers |
| compute_product_Bern_table | Compute the product Bernoulli probability table |
| cuthill_mckee | Cuthill McKee (CM) algorithm |
| distAB | Frobenius norm: ||AA'-BB'||_F |
| do_update_Q_one | Update the current element of Q_ml or not |
| equal_unit_vec | check whether a vector is equal to a unit vector with the one... |
| eval_string | create a string with parts that need to be replaced by a... |
| f | flip the matrix to the right form for 'image()' |
| fix_cluster | adjust cluster ids by specification |
| get_freq | Get frequency count for each integer |
| log_f_logden | compute the log of density of inactive states' probability... |
| log_f_logprima | compute the derivative of the log of density of inactive... |
| log_full | Function to compute the full cluster-specific likelihood... |
| log_marginal | R Function to compute the cluster-specific marginal... |
| log_marginal_Q_identity | R Function to compute the cluster-specific marginal... |
| log_pr_Qml_cond | Compute the full conditional probability of Q_ml given the... |
| log_pr_Qml_cond_enum | Compute the full conditional probability of column Q_l given... |
| mblock | obtain the indices of rows of Q that form orthogonal blocks |
| merge_H_col | Merge redundant H_star by column |
| merge_H_Q | Merge latent state profile matrix (H_star) and Q matrix |
| merge_map | Merge mapping |
| merge_Q | merge Q matrix by rows |
| metrop_flip | Metroplis flipping to improve mixing |
| mfm_coefficients | computing coefficients for mixture of finite mixture model |
| ordered_insert | insert a cluster ID prior to "index"; mylist keeps a list of... |
| ordered_next | Find the next available cluster ID to use: |
| ordered_remove | remove an index from a vector of cluster ID |
| order_mat_byrow | Order a binary matrix by row |
| plot_individual_pred | Plot individual probabilities |
| plot_population_fractions | Plot population "etiology" fractions (for known Q only) |
| plot_rewind | Plot data, design matrix or co-clustering probabilities |
| plot_truth | Plot truth for simulation studies |
| postprocess_H_Q | Merge H and Q |
| restricted_gibbs | Restricted Gibbs scan to update assignment indicators in S. |
| rewind | rewind: *R*constructing *E*tiology *w*ith B*in*ary... |
| sampler | Main function for model estimation |
| scatterhist | Plot posterior sampling chain and the histogram on the right... |
| simulate_data | simulate data from restricted latent class models |
| simulate_Q | Randomly generate a Q matrix within the identifying... |
| simulate_Q_dat | Randomly generate a Q matrix within the identifying condition... |
| split_merge | Split-merge type update of clusterings |
| summarize_latent_state_given_Q | Summarize individual latent state patterns given Q |
| trunc_rbeta | Sample truncated Beta random variables |
| update_alpha | sample alpha - hyperparameter for latent state prevalences... |
| update_mu_PR | sample a_theta_one - hyperparameter (mean) for positive rates... |
| update_positive_rate | update true and false positive rates |
| update_prevalence | update latent state prevalences |
| update_pseudo_n_PR | sample alpha_s - hyperparameter for positive rates theta_l,... |
| update_Q | update the Q matrix element-wise |
| update_Q_col_block | Block update the Q matrix by column |
| z2comat | Compute the posterior co-clustering probability matrix... |
