RadioSet: RadioSet constructor
In RadioGx: Analysis of Large-Scale Radio-Genomic Data

Description Usage Arguments Value Examples

A constructor that simplifies the process of creating RadioSets, as well as creates empty objects for data not provided to the constructor. Only objects returned by this constructor are expected to work with the RadioSet methods. For a much more detailed instruction on creating RadioSets, please see the "CreatingRadioSet" vignette.

RadioSet(name, molecularProfiles = list(), cell = data.frame(),
  radiation = data.frame(), sensitivityInfo = data.frame(),
  sensitivityRaw = array(dim = c(0, 0, 0)),
  sensitivityProfiles = matrix(), sensitivityN = matrix(nrow = 0, ncol
  = 0), perturbationN = array(NA, dim = c(0, 0, 0)),
  curationCell = data.frame(), curationTissue = data.frame(),
  datasetType = c("sensitivity", "perturbation", "both"),
  verify = TRUE)

`name`	A `character` string detailing the name of the dataset
`molecularProfiles`	A `list` of ExpressionSet objects containing molecular profiles
`cell`	A `data.frame` containg the annotations for all the cell lines profiled in the data set, across all data types
`radiation`	A `data.frame` containg the annotations for all the radiations profiled in the data set, across all data types
`sensitivityInfo`	A `data.frame` containing the information for the sensitivity experiments
`sensitivityRaw`	A 3 Dimensional `array` contaning the raw radiation dose – response data for the sensitivity experiments
`sensitivityProfiles`	`data.frame` containing radiation sensitivity profile statistics such as IC50 and AUC
`sensitivityN, perturbationN`	A `data.frame` summarizing the available sensitivity/perturbation data
`curationCell, curationTissue`	A `data.frame` mapping the names for radiations, cells and tissues used in the data set to universal identifiers used between different RadioSet objects
`datasetType`	A `character` string of 'sensitivity', 'preturbation', or both detailing what type of data can be found in the RadioSet, for proper processing of the data
`verify`	`boolean` Should the function verify the RadioSet and print out any errors it finds after construction?