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populationPDXdesign (version 1.0.3)

Designing Population PDX Studies

Description

Run simulations to assess the impact of various designs features and the underlying biological behaviour on the outcome of a Patient Derived Xenograft (PDX) population study. This project can either be deployed to a server as a 'shiny' app or installed locally as a package and run the app using the command 'populationPDXdesignApp()'.

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Version

Install

install.packages('populationPDXdesign')

Monthly Downloads

184

Version

1.0.3

License

GPL (>= 3)

Maintainer

Maria Luisa Guerriero

Last Published

August 8th, 2018

Functions in populationPDXdesign (1.0.3)

populationPDXdesignApp

Function populationPDXdesignApp

Function to calculate the number of missed calls for a design for a go-no go threshold

outcomeInSingleExperiment

Function to summarise the results for a single simulation representing one experiment

callsInSingleExperiment

Simulation of a single population PDX experiment

outcomeMultipleExperiments

Function to run simulations to mimic population PDX studies for a defined scenario

Function to return the mode of a vector of values

'shiny' app user interface function

varyingPDXnPDXrBiolRR

Function to run simulations to mimic population PDX studies for variety of experimental and biological scenarios

'shiny' app server function

plotSensitivity

A function to visualise the sensitivity as a function of PDXn and PDXr

Function to calculate the number of false calls for a design for a go-no go threshold

plotFalsepositive

A function to visualise the false postive rate as a function of PDXn and PDXr