Likelihood Ratio Test-Based Approaches to Pharmacovigilance

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Documentation for package ‘pvLRT’ version 0.3

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pvLRT-package 'pvLRT': An R package implementing various Likelihood Ratio Test-based approaches to pharmacovigilance
as.matrix.pvlrt Casting a 'pvlrt' object as a matrix of log LR statistics
barplot.pvlrt Heatmap, barplot and bubbleplot displaying liklihood ratio test results in a 'pvlrt' object
bubbleplot_pvlrt Heatmap, barplot and bubbleplot displaying liklihood ratio test results in a 'pvlrt' object
extract_AE_names Extracting and setting AE and Drug names from a pvlrt object
extract_Drug_names Extracting and setting AE and Drug names from a pvlrt object
extract_lrstat_matrix Extract various summary measures from a pvlrt object
extract_n_matrix Extract various summary measures from a pvlrt object
extract_p_value_matrix Extract various summary measures from a pvlrt object
extract_significant_pairs Extract various summary measures from a pvlrt object
extract_zi_probability Extract various summary measures from a pvlrt object
gbca FDA GBCA dataset with all observed 1707 adverse effects
heatmap_pvlrt Heatmap, barplot and bubbleplot displaying liklihood ratio test results in a 'pvlrt' object
logLik.pvlrt Overall Log-likelihood for a pvlrt object
lovastatin FDA lovastatin dataset
lrt_poisson Likelihood Ratio Test under the (vanilla, non-zero-inflated) Poisson model
lrt_vanilla_poisson Likelihood Ratio Test under the (vanilla, non-zero-inflated) Poisson model
lrt_zi_poisson Pseudo Likelihood Ratio Test under the zero-inflated Poisson model with relative reporting rate parametrization
plot.pvlrt Plotting method for a pvlrt object
print.pvlrt Print method for pvlrt objects
pvlrt Pseudo Likelihood Ratio Test for determining significant AE-Drug pairs under Poisson and zero-inflated Poisson models for pharmacovigilance
r_contin_table_zip Generate random contingency tables for adverse effect (across rows) and drug (across columns) combinations given row and column marginal totals, embedded signals, and possibly with zero inflation
set_AE_names Extracting and setting AE and Drug names from a pvlrt object
set_Drug_names Extracting and setting AE and Drug names from a pvlrt object
statin FDA Statin dataset with all observed 6039 adverse effects
statin1491 FDA Statin dataset with 1491 adverse effects
statin46 FDA Statin dataset with 46 adverse effects
summary.pvlrt Summary method for a pvlrt object