diff --git a/man/metrics_plot.Rd b/man/metrics_plot.Rd index f252d49384a8660ddedbb30a6ae392a4a69bf8e7..f01ebf10c22d090eb53bf5e473ecbdc2af45437f 100644 --- a/man/metrics_plot.Rd +++ b/man/metrics_plot.Rd @@ -14,7 +14,7 @@ values include "AIC", "BIC", "logLik", "deviance", "df.resid", and "dispersion". If \code{NULL}, all available metrics will be plotted.} } \value{ -A ggplot object displaying density plots for the specified metrics. +A ggplot object displaying histogram plots for the specified metrics. } \description{ This function generates a density plot of the specified metrics for the given diff --git a/man/simulationReport.Rd b/man/simulationReport.Rd index 2d678f3d95e582e91e8ba1cb00257224fbfedc39..123a3af603ad14486e6d3fd7bf943dceb68090cc 100644 --- a/man/simulationReport.Rd +++ b/man/simulationReport.Rd @@ -7,10 +7,10 @@ simulationReport( mock_obj, list_tmb = NULL, - dds_obj = NULL, coeff_threshold = 0, alt_hypothesis = "greaterAbs", - report_file = NULL + report_file = NULL, + dds_obj = NULL ) } \arguments{ @@ -18,13 +18,13 @@ simulationReport( \item{list_tmb}{A list of model results.} -\item{dds_obj}{a DESeq2 object} - \item{coeff_threshold}{A threshold for comparing estimates.} \item{alt_hypothesis}{The alternative hypothesis for comparisons ("greater", "less", "greaterAbs").} \item{report_file}{File name to save the generated report. If NULL, the report will not be exported.} + +\item{dds_obj}{a DESeq2 object} } \value{ A list containing settings, plots, and evaluation results.