CallTreeSet-class {xps} | R Documentation

## Class CallTreeSet

### Description

This class provides the link to the `ROOT` call file and the `ROOT` trees contained therein. It extends class `ProcesSet`.

### Objects from the Class

Objects are created using functions `mas5.call` or `dabg.call`, respectively.

### Slots

`calltype`:
  Object of class `"character"` representing the call type, i.e. ‘mas5’ or ‘dabg’.
`detcall`:
  Object of class `"data.frame"`. The data.frame can contain the detection calls stored in `ROOT` call trees.
`scheme`:
  Object of class `"SchemeTreeSet"` providing access to `ROOT` scheme file.
`data`:
  Object of class `"data.frame"`. The data.frame can contain the data (i.e. p-values) stored in `ROOT` call trees.
`params`:
  Object of class `"list"` representing relevant parameters.
`setname`:
  Object of class `"character"` representing the name to the `ROOT` file subdirectoy where the `ROOT` call trees are stored, usually ‘CallTreeSet’.
`settype`:
  Object of class `"character"` describing the type of treeset stored in `setname`, usually ‘preprocess’.
`rootfile`:
  Object of class `"character"` representing the name of the `ROOT` call file, including full path.
`filedir`:
  Object of class `"character"` describing the full path to the system directory where `rootfile` is stored.
`numtrees`:
  Object of class `"numeric"` representing the number of `ROOT` trees stored in subdirectoy `setname`.
`treenames`:
  Object of class `"list"` representing the names of the `ROOT` trees stored in subdirectoy `setname`.

### Extends

Class `"ProcesSet"`, directly. Class `"TreeSet"`, by class "ProcesSet", distance 2.

### Methods

attachCall
  `signature(object = "CallTreeSet")`: exports detection call data from `ROOT` call file and and saves as data.frame `detcall`.
attachPVal
  `signature(object = "CallTreeSet")`: exports call p-values from `ROOT` call file and and saves as data.frame `data`.
callplot
  `signature(x = "CallTreeSet")`: creates a barplot of percent present and absent calls.
presCall
  `signature(object = "CallTreeSet")`: extracts the detection call data.frame.
presCall<-
  `signature(object = "CallTreeSet", value = "data.frame")`: replaces the detection call data.frame.
pvalData
  `signature(object = "CallTreeSet")`: extracts the detection p-value data.frame.
pvalData<-
  `signature(object = "CallTreeSet", value = "data.frame")`: replaces the detection p-value data.frame.
removeCall
  `signature(object = "CallTreeSet")`: replaces data.frame `detcall` with an empty data.frame of dim(0,0).
removePVal
  `signature(object = "CallTreeSet")`: replaces data.frame `data` with an empty data.frame of dim(0,0).
validCall
  `signature(object = "CallTreeSet")`: extracts a subset of columns from data.frame `detcall`.

### Author(s)

Christian Stratowa

### See Also

related classes `DataTreeSet`, `ExprTreeSet`.

### Examples

    showClass("CallTreeSet")

[Package xps version 1.2.10 Index]