Likelihood Ratio Test-Based Approaches to Pharmacovigilance

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Documentation for package ‘pvLRT’ version 0.5.1

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pvLRT-package 'pvLRT': An R package implementing various Likelihood Ratio Test-based approaches to pharmacovigilance
all.equal.pvlrt Test if two pvlrt objects are (Nearly) Equal
as.matrix.pvlrt Casting a 'pvlrt' object as a matrix of log LR statistics
barplot.pvlrt Heatmap, barplot and bubbleplot displaying likelihood ratio test results in a 'pvlrt' object
bubbleplot_pvlrt Heatmap, barplot and bubbleplot displaying likelihood ratio test results in a 'pvlrt' object
convert_raw_to_contin_table Convert raw AE-Drug incidence data into a contingency table
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_run_time 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
faers22q3raw FDA FAERS dataset for 2022 Q3
gbca FDA GBCA dataset with all observed 1707 adverse events
heatmap_pvlrt Heatmap, barplot and bubbleplot displaying likelihood 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
rv FDA rotavirus vaccine dataset with 794 adverse events observed among combined old (age >= 1 year) and young (age < 1 year) individuals
rvold FDA rotavirus vaccine dataset with 727 adverse events observed among "old" (non-infant; age >= 1 year) individuals
rvyoung FDA rotavirus vaccine dataset with 346 adverse events observed among young (infant - 1 year) individuals
r_contin_table_zip Generate random contingency tables for adverse event (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 6039 adverse events
statin1491 FDA Statin dataset with 1491 adverse events
statin46 FDA Statin dataset with 46 adverse events
summary.pvlrt Summary method for a pvlrt object