% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/diffHTS-package.R
\docType{package}
\name{diffHTS-package}
\alias{diffHTS}
\alias{diffHTS-package}
\title{diffHTS: Differential Drug Sensitivity Analysis for Two-Condition
High-Throughput Screens}
\description{
The diffHTS package bundles reusable methods for analysing
high-throughput drug screening (HTS) experiments that contrast two
conditions, for example irradiated versus non-irradiated cells or cancer
versus normal cell lines. The typical workflow is:
}
\details{
\enumerate{
\item Fit four-parameter logistic dose-response curves per drug and
condition with \code{\link[=fit_dose_response]{fit_dose_response()}} and summarise potency with
\code{\link[=compute_auc]{compute_auc()}}.
\item Assess plate quality with \code{\link[=calculate_qc_metrics]{calculate_qc_metrics()}} and
\code{\link[=flag_qc_plates]{flag_qc_plates()}}.
\item Contrast the two conditions with \code{\link[=compute_delta_auc]{compute_delta_auc()}} to obtain a
differential AUC and its within-experiment z-score.
\item Nominate hits with \code{\link[=select_hits_cutoff]{select_hits_cutoff()}} or \code{\link[=select_hits_sigma]{select_hits_sigma()}}.
\item Visualise results with \code{\link[=plot_delta_auc_heatmap]{plot_delta_auc_heatmap()}},
\code{\link[=plot_condition_scatter]{plot_condition_scatter()}} and \code{\link[=plot_qc_boxplot]{plot_qc_boxplot()}}.
}

Two small demonstration datasets, \link{screen_doseresponse} and
\link{screen_delta_auc}, are provided to run the examples end to end.
}
\author{
\strong{Maintainer}: Liang Tang \email{xphdtangliang@gmail.com}

Authors:
\itemize{
  \item Liang Tang \email{xphdtangliang@gmail.com}
}

}
\keyword{internal}
