In lshen1/drexplorer2: Dose-response Explorer2

knitr::opts_chunk$set(
  message = FALSE,
  digits = 3,
  collapse = TRUE,
  comment = "#>"
  )
options(digits = 3)

GUI interface has been shipped with drexplorer2 which is built upon the \Rpackage{fgui}. After loading the drexplorer2 package, typing

• drexplorerGUI_1()

in the R console will bring out the GUI for fitting dose-response curves.

This GUI assumes input file in comma-separated format or tab-delimited format. The first column is assumed to be dose and the second column is assumed to be response. An optional header can be provided in the first row. Users can click the "Use example data" button for an example run using the ryegrass data. Result files will be saved in a folder called drexplorer_results at the working directory of R session including:

• DoseResponseCurve.pdf: the fitted dose response curve.
• ICtable.csv: estimated IC (inhibitory concentration) values at different percentiles.
• ICtable.csv: outlier status for each data point.

Notice that example input file called ryegrass.csv will be dumped into the result folder if example data is used.

Similarly, typing

• drexplorerGUI_2()

will bring out the GUI for drug-drug interaction analysis.

Users can run the UMSCC22B data set or the nl22B2 data set by clicking the "Use UMSCC22B data" or the "Use nl22B2 data" buttons. Example input files (UMSCC22B.csv and nl22B2.csv) will be dumped into the result folder drexplorer_results after the example run. Similar to the previous GUI, input file can be either a comma-separated file or tab-delimited file. Three columns are needed to run this GUI:

• The first column is assumed to be the dose of drug 1.
• The second column is assumed to be the dose of drug 2.
• The last column is assumed to be response under drug combinations.

A multi-page pdf file will be generated to save various plots (e.g. IAIplot_for_nl22B2.pdf). A comma-separated file will be generated to save estimates of IAI as well as 95% confidence interval (e.g. IAI_CI_nl22B2.csv).

lshen1/drexplorer2 documentation built on June 2, 2020, 9:27 p.m.