setResponse: set PDX response

In bhklab/Xeva: Analysis of patient-derived xenograft (PDX) data

set PDX response

Description

setResponse sets response of all PDXs in an Xeva object.

Usage

setResponse(
  object,
  res.measure = c("mRECIST", "slope", "AUC", "angle", "abc", "TGI", "lmm"),
  min.time = 10,
  treatment.only = FALSE,
  max.time = NULL,
  vol.normal = FALSE,
  impute.value = TRUE,
  concurrent.time = TRUE,
  log.volume = FALSE,
  verbose = TRUE
)

Arguments

object	Xeva object.
res.measure	Response measure, multiple measures are allowed. See Details below
min.time	Minimum number of days for mRECIST computation. Default 10 days.
treatment.only	Default FALSE. If TRUE, give data for non-zero dose periods only (if dose data are available).
max.time	Maximum number of days to consider for analysis. Data byond this will be discarded. Default NULL takes full data.
vol.normal	If TRUE it will will normalize the volume. Default FALSE
impute.value	Default FALSE. If TRUE, impute the missing volume values.
concurrent.time	Default FALSE. If TRUE, cut the batch data such that control and treatment will end at same time point.
log.volume	If TRUE log of the volume will be used for response calculation. Default FALSE
verbose	Default TRUE will print information.

Details

At present fellowing response measure are implemented

• mRECIST Computes mRECIST for indivial PDX model

• slope Computes slope of the fitted indivial PDX curve

• AUC Computes area under a PDX curve for indivial PDX model

• angle Computes angle between treatment and control PDX curves

• abc Computes area between the treatment and control PDX curves

• TGI Computes tumor growth inhibition using treatment and control PDX curves

• lmm Computes linear mixed model (lmm) statistics for a PDX batch

Value

Returns updated Xeva object.

Examples

data(brca)
brca  <- setResponse(brca, res.measure = c("mRECIST"), verbose=FALSE)

bhklab/Xeva documentation built on Nov. 30, 2024, 3:17 a.m.