Montag, 19. Dezember 2016

R: Clinical Trial Simulator

The first version of the clinical trial simulator is online now.

It uses a dose-response model based on the Hill equation which basically is a saturation model. The assumption is that a cell is covered by a finite number of receptors. When the treatment is applied, a fraction of the receptors (depending on the dosage) is interacting with the treatment molecule and every interaction leads to a response. When every receptor is binding to the treatment, the response saturates.

It's based on the MSToolkit package and is hosted online at shiny apps under

Sonntag, 4. Dezember 2016

R: Sample Size Calculator

Given a beta, how many patients need to be enrolled in a two-armed study of conventional against experimental therapy? Significance is set to 0.05, recruitment period and follow-up period can be defined together with median disease free survival times for the two study groups (implemented in R/Shiny):

Github repository

Try it (also mobile)!

R Shiny: Some reactivity by example

Start R from the directory containing ui.r and server.r, import the shiny library and start the (development) server using runApp().


function(input, output) {
    rv <- reactiveValues()

    # Only modify and output reactive input
    output$numOut1 <- renderText({
    # Modify, reassign and output reactive input.
    output$numOut2 <- renderText({
        rv$a <- input$n+20
    # Use modified reactive input, modify and output.
    output$num1 <- renderText({
        rv$s <- rv$a+runif(1)
    # Assign reactive input locally, modify locally, print.
    output$num2 <- renderText({
        k <- input$n
        paste(as.character(runif(1)), "here", k-10)
    # Use reactive value from another reactive function,
    # modify and print.
    output$let <- renderText({
        paste(as.character(rv$s), sample(letters, 1), sep="")



    numericInput(inputId="n", "Shiny Reactivity Example", value=25),