unmarkedFrame-class {unmarked} | R Documentation

## Class "unmarkedFrame"

### Description

Methods for manipulating, summarizing and viewing unmarkedFrames

### Objects from the Class

Objects can be created by calls to the constructor function `unmarkedFrame`. These objects are passed to the data argument of the fitting functions.

### Slots

`y`:

  Object of class `"matrix"`

`obsCovs`:

  Object of class `"optionalDataFrame"`

`siteCovs`:

  Object of class `"optionalDataFrame"`

`mapInfo`:

  Object of class `"optionalMapInfo"`

`obsToY`:

  Object of class `"optionalMatrix"`

### Methods

[

  `signature(x = "unmarkedFrame", i = "numeric", j = "missing", drop = "missing")`: ...

[

  `signature(x = "unmarkedFrame", i = "numeric", j = "numeric", drop = "missing")`: ...

[

  `signature(x = "unmarkedFrame", i = "missing", j = "numeric", drop = "missing")`: ...

coordinates

  `signature(object = "unmarkedFrame")`: extract coordinates

getY

  `signature(object = "unmarkedFrame")`: extract y matrix

numSites

  `signature(object = "unmarkedFrame")`: extract M

numY

  `signature(object = "unmarkedFrame")`: extract ncol(y)

obsCovs

  `signature(object = "unmarkedFrame")`: extract observation-level covariates

obsCovs<-

  `signature(object = "unmarkedFrame")`: add or modify observation-level covariates

obsNum

  `signature(object = "unmarkedFrame")`: extract number of observations

obsToY

  `signature(object = "unmarkedFrame")`:

obsToY<-

  `signature(object = "unmarkedFrame")`: ...

plot

  `signature(x = "unmarkedFrame", y = "missing")`: visualize response variable. Takes additional argument `panels` which specifies how many panels data should be split over.

projection

  `signature(object = "unmarkedFrame")`: extract projection information

show

  `signature(object = "unmarkedFrame")`: view data as data.frame

siteCovs

  `signature(object = "unmarkedFrame")`: extract site-level covariates

siteCovs<-

  `signature(object = "unmarkedFrame")`: add or modify site-level covariates

summary

  `signature(object = "unmarkedFrame")`: summarize data

### Note

This is a superclass with child classes for each fitting function

### See Also

`unmarkedFrame`, `unmarkedFit`, `unmarked-package`

### Examples

    # Organize data for pcount()
    data(mallard)
    mallardUMF <- unmarkedFramePCount(mallard.y, siteCovs = mallard.site,
    	obsCovs = mallard.obs)

    # Vizualize it
    plot(mallardUMF)

    mallardUMF

    # Summarize it
    summary(mallardUMF)

    str(mallardUMF)

    numSites(mallardUMF)

    numY(mallardUMF)

    obsNum(mallardUMF)

    # Extract components of data
    getY(mallardUMF)

    obsCovs(mallardUMF)
    obsCovs(mallardUMF, matrices = TRUE)

    siteCovs(mallardUMF)

    mallardUMF[1:5,]	# First 5 rows in wide format

    mallardUMF[,1:2]	# First 2 observations

[Package unmarked version 0.12-3 Index]