Analysis of habitat selection by animals


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Documentation for package ‘adehabitat’ version 1.8.2

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A B C D E F G H I J K L M N O P Q R S T V W misc

-- --

adehabitat-package adehabitat: a Package for the Analysis of the Space Use by Animals

-- A --

adehabitat adehabitat: a Package for the Analysis of the Space Use by Animals
albatross Argos Monitoring of Adult Albatross Movement
altr Attach or Detach Bursts in Objects of Class 'ltraj' to Search Path
angles Compute Turning Angles - Deprecated
ararea Compute Areas and Perimeters of Objects of Class "area"
area Objects of Class "area"
area2asc Converts a Polygon to Raster
area2dxf Exportation of Areas
area2spol Conversion of maps from/to the package "sp"
as.area Objects of Class "area"
as.asc Arcview ASCII Raster File Importation And Exportation
as.kasc Working with Several Raster Maps
as.ltraj Working with Trajectories in 2D Space: the Class ltraj
as.sahrlocs Exploratory Analysis of Habitat Selection
as.traj Working with Trajects in 2D Space
asc Arcview ASCII Raster File Importation And Exportation
asc2im Conversion of Maps of Class 'asc' and 'im' (Package spatstat)
asc2spixdf Conversion of maps from/to the package "sp"
ascgen Creation of Raster Maps
attpol2area Conversion of maps from/to the package "sp"

-- B --

bauges Census of chamois (Rupicapra rupicapra) in the Bauges mountains
bear GPS monitoring of one brown bear
bestpartmod Segmentation of a trajectory based on Markov models (STILL UNDER RESEARCH!!)
bighorn Radio-Tracking of Bighorn Sheeps
bindltraj Split Trajectories into Several Bursts
biv.plot Bivariate Test
biv.test Bivariate Test
buffer Compute Buffers
burst ID and Bursts of an Object of Class ltraj

-- C --

c.ltraj Combine Bursts of Relocations in Objects of Class "ltraj"
capreochiz GPS Monitoring of one Roe Deer in Chize (France)
capreotf GPS Monitoring of one Roe Deer in Trois-Fontaines (France)
chamois Location of Chamois Groups in the Chartreuse Mountains
chi The Chi Distribution
clusthr Estimation of Home Range by Clustering
colasc Creates a Vector of Colors for a Raster Map of Type 'factor'
compana Compositional Analysis of Habitat Use
contour.asc Displays a Color Image of a Matrix of Class 'asc'
convnum Conversion from Factor to Numeric for Raster Map
count.points Number of Points in Each Pixel of a Raster Map
cutltraj Split Trajectories into Several Bursts

-- D --

data2enfa Ecological Niche Factor Analysis
dchi The Chi Distribution
df2kasc Conversion of Objects of Class kasc
df2traj Working with Trajects in 2D Space
distfacmap Compute distances to the different levels of a factor map
dltr Attach or Detach Bursts in Objects of Class 'ltraj' to Search Path
domain Estimation of the Potential Distribution of a Species
dunnfa Factorial Analysis of the Specialization in Habitat Selection Studies. Unpublished Work of James Dunn (University of Arkansas)

-- E --

eisera Eigenanalysis of Selection Ratios
enfa Ecological Niche Factor Analysis
engen2008I Measuring Habitat Selection Using the Method of Engen et al. (2008)
engen2008II Measuring Habitat Selection Using the Method of Engen et al. (2008)
explore.kasc Interactive Exploration of Maps of Class kasc (requires the package tkrplot)
export.asc Arcview ASCII Raster File Importation And Exportation
Extract.ltraj Extract or Replace Parts of an Object of Class ltraj
exwc Kernel Smoothing in Space and Time of the Animals' Use of Space

-- F --

findmaxasc Find Local Maxima on a Map of Class 'asc'
fpt Computation of the First Passage Time From Trajectories

-- G --

gdltraj Working with Trajectories: Specify a Time Period
getascattr Copy the Attributes of an Object of Class 'asc' or 'kasc' to another Object
getburst Working with Trajects in 2D Space
getcontour Computes the Contour Polygon of a Raster Object
getkasc Working with Several Raster Maps
getkascattr Copy the Attributes of an Object of Class 'asc' or 'kasc' to another Object
getsahrlocs Exploratory Analysis of Habitat Selection
getverticesclusthr Estimation of Home Range by Clustering
getverticeshr Estimation of Kernel Home-Range
getverticeshrk Kernel Smoothing in Space and Time of the Animals' Use of Space
getverticeshrs Kernel Smoothing in Space and Time of the Animals' Use of Space
getvolumeUD Estimation of Kernel Home-Range
getvolumeUDk Kernel Smoothing in Space and Time of the Animals' Use of Space
getvolumeUDs Kernel Smoothing in Space and Time of the Animals' Use of Space
getXYcoords Computes the X and Y Coordinates of the Pixels of a Raster Map
gnesfa General Niche-Environment System Factor Analysis

-- H --

hbrown Estimates the value of h for a Brownian motion
hist.enfa Ecological Niche Factor Analysis
hist.kasc Histograms of Mapped Variables
hist.kselect K-Select Analysis: a Method to Analyse the Habitat Selection by Animals
hist.ltraj Histogram of the Descriptive Parameters of a Trajectory
hist.madifa The MADIFA: a Factorial Decomposition of the Mahalanobis Distances
histniche Histograms of the Ecological Niche
hr.rast Rasterisation of Objects of Class 'area'
hseal Argos Monitoring of Hooded Seal

-- I --

ibex GPS Monitoring of Four Ibex in the Belledonne Mountain
ibexraw GPS Monitoring of Four Ibex in the Belledonne Mountain (irregular data)
id ID and Bursts of an Object of Class ltraj
im2asc Conversion of Maps of Class 'asc' and 'im' (Package spatstat)
image.asc Displays a Color Image of a Matrix of Class 'asc'
image.kasc Working with Several Raster Maps
image.khr Estimation of Kernel Home-Range
image.sahrlocs Graphical Display of the Habitat Composition of the Home Ranges of Animals Monitored Using Radio-Tracking
import.asc Arcview ASCII Raster File Importation And Exportation
indmove Testing Independence in Regular Trajectory Parameters
is.regular Regular Trajectories
is.sd Handling of Trajectories of the Same Duration

-- J --

join.asc Finds the Value of Mapped Variables at some Specified Locations (Spatial Join)
join.kasc Finds the Value of Mapped Variables at some Specified Locations (Spatial Join)

-- K --

kasc Working with Several Raster Maps
kasc2df Conversion of Objects of Class kasc
kasc2spixdf Conversion of maps from/to the package "sp"
kernel.area Estimation of Kernel Home-Range
kernelbb Estimation of Kernel Brownian Bridge Home-Range
kernelkc Kernel Smoothing in Space and Time of the Animals' Use of Space
kernelkcbase Kernel Smoothing in Space and Time of the Animals' Use of Space
kerneloverlap Spatial Interaction between Animals Monitored Using Radio-Tracking
kerneloverlaphr Spatial Interaction between Animals Monitored Using Radio-Tracking
kernelUD Estimation of Kernel Home-Range
kplot.kselect K-Select Analysis: a Method to Analyse the Habitat Selection by Animals
kselect K-Select Analysis: a Method to Analyse the Habitat Selection by Animals
kver Handling of Objects of Class kver
kver2shapefile Handling of Objects of Class kver
kver2spol Conversion of maps from/to the package "sp"

-- L --

labcon Labelling Connected Features
liker Estimation of Kernel Brownian Bridge Home-Range
lowres Reducing the Resolution of a Map
ltraj Working with Trajectories in 2D Space: the Class ltraj
ltraj2sldf Conversion of maps from/to the package "sp"
ltraj2spdf Conversion of maps from/to the package "sp"
ltraj2traj Working with Trajectories in 2D Space: the Class ltraj
lynxjura Monitoring of Lynx

-- M --

madifa The MADIFA: a Factorial Decomposition of the Mahalanobis Distances
mahasuhab Habitat Suitability Mapping with Mahalanobis Distances.
managNAkasc "Cleaning" Objects of Class 'kasc'
mapattr Store Attributes of Maps of Class asc and kasc
mcp Estimation of the Home Range Using the Minimum Convex Polygon Estimator
mcp.rast Converts a Polygon to Raster
meanfpt Computation of the First Passage Time From Trajectories
mindistkeep Detecting Absence of Movement in an Object of Class 'ltraj'
modpartltraj Segmentation of a trajectory based on Markov models (STILL UNDER RESEARCH!!)
morphology Morphology: Erosion or Dilatation of Features on a Raster Map
mouflon GPS Monitoring of One Mouflon in the Caroux Mountain

-- N --

niche.test Monte-Carlo Test on Parameters of the Ecological Niche
NNCH Nearest Neighbor Convex Hulls (LoCoH)
NNCH.a.area LoCoH (NNCH): Home Range Area
NNCH.area LoCoH (NNCH): Home Range Area
NNCH.asciigrid LoCoH (NNCH): Useful Functions
NNCH.der.a.area LoCoH (NNCH): Home Range Area
NNCH.der.k.area LoCoH (NNCH): Home Range Area
NNCH.der.n.area LoCoH (NNCH): Home Range Area
NNCH.der.r.area LoCoH (NNCH): Home Range Area
NNCH.k.area LoCoH (NNCH): Home Range Area
NNCH.n.area LoCoH (NNCH): Home Range Area
NNCH.r.area LoCoH (NNCH): Home Range Area
NNCH.select LoCoH (NNCH): Useful Functions
NNCH.shapefile LoCoH (NNCH): Useful Functions

-- O --

offsetdate Date Handling in an Object of Class 'ltraj'

-- P --

partmod.ltraj Segmentation of a trajectory based on Markov models (STILL UNDER RESEARCH!!)
pchi The Chi Distribution
perarea Compute Areas and Perimeters of Objects of Class "area"
persp.asc Displays a Color Image of a Matrix of Class 'asc'
pheasant Radio-Tracking of Pheasants
plot.area Graphical Display of Objects of Class "area"
plot.asc Displays a Color Image of a Matrix of Class 'asc'
plot.clusthr Estimation of Home Range by Clustering
plot.fipati Computation of the First Passage Time From Trajectories
plot.hrsize Estimation of the Home Range Using the Minimum Convex Polygon Estimator
plot.kselect K-Select Analysis: a Method to Analyse the Habitat Selection by Animals
plot.kver Handling of Objects of Class kver
plot.ltraj Graphical Display of an Object of Class "ltraj"
plot.madifa The MADIFA: a Factorial Decomposition of the Mahalanobis Distances
plot.narea LoCoH (NNCH): Home Range Area
plot.NNCH LoCoH (NNCH): Useful Functions
plot.partltraj Segmentation of a trajectory based on Markov models (STILL UNDER RESEARCH!!)
plot.sahrlocs Exploratory Analysis of Habitat Selection
plot.traj Working with Trajects in 2D Space
plot.wi Computation of Selection Ratios for Habitat Selection Studies.
plotLSCV Estimation of Kernel Home-Range
plotltr Changes in Traject Parameters Over Time
plotNAltraj Highlighting the Patterns in Missing Values in Trajects
porpoise Argos monitoring of Porpoise Movements
predict.enfa Habitat Suitability Maps Built from the ENFA
predict.madifa The MADIFA: a Factorial Decomposition of the Mahalanobis Distances
print.asc Arcview ASCII Raster File Importation And Exportation
print.clusthr Estimation of Home Range by Clustering
print.compana Compositional Analysis of Habitat Use
print.dataenfa Ecological Niche Factor Analysis
print.dunnfa Factorial Analysis of the Specialization in Habitat Selection Studies. Unpublished Work of James Dunn (University of Arkansas)
print.enfa Ecological Niche Factor Analysis
print.engenetalI Measuring Habitat Selection Using the Method of Engen et al. (2008)
print.engenetalII Measuring Habitat Selection Using the Method of Engen et al. (2008)
print.esr Eigenanalysis of Selection Ratios
print.gnesfa General Niche-Environment System Factor Analysis
print.kasc Working with Several Raster Maps
print.khr Estimation of Kernel Home-Range
print.kselect K-Select Analysis: a Method to Analyse the Habitat Selection by Animals
print.liker Estimation of Kernel Brownian Bridge Home-Range
print.ltraj Working with Trajectories in 2D Space: the Class ltraj
print.madifa The MADIFA: a Factorial Decomposition of the Mahalanobis Distances
print.modpartltraj Segmentation of a trajectory based on Markov models (STILL UNDER RESEARCH!!)
print.NNCH LoCoH (NNCH): Useful Functions
print.partltraj Segmentation of a trajectory based on Markov models (STILL UNDER RESEARCH!!)
print.plotsahr Exploratory Analysis of Habitat Selection
print.rand.kselect Test of the Third-Order Habitat Selection
print.sahrlocs Exploratory Analysis of Habitat Selection
print.traj Working with Trajects in 2D Space
print.wiI Computation of Selection Ratios for Habitat Selection Studies.
print.wiII Computation of Selection Ratios for Habitat Selection Studies.
print.wiIII Computation of Selection Ratios for Habitat Selection Studies.
puech Radio-Tracking Data of Wild Boar (2)
puechabon Radio-Tracking Data of Wild Boar
puechcirc Movements of wild boars tracked at Puechabon
puechdesIII Habitat Selection by the Wild Boar at Puechabon

-- Q --

qchi The Chi Distribution
qqchi Quantile-Quantile Plots for Trajectories of Class 'ltraj'
qqnorm.ltraj Quantile-Quantile Plots for Trajectories of Class 'ltraj'

-- R --

rand.kselect Test of the Third-Order Habitat Selection
randtest.enfa Randomisation Test for the Ecological Niche Factor Analysis
rchi The Chi Distribution
rec Working with Trajectories in 2D Space: the Class ltraj
redisltraj Rediscretization of a Trajectory With Regular Step Length
runsNAltraj Highlighting the Patterns in Missing Values in Trajects
rupicabau GPS Monitoring of One Chamois in the Bauges Mountains

-- S --

s.madifa The MADIFA: a Factorial Decomposition of the Mahalanobis Distances
sahrlocs Exploratory Analysis of Habitat Selection
sahrlocs2kselect Preparation of K-Select Analysis
sahrlocs2niche OMI Analysis of Radio-Tracking Data
scatter.enfa Scatter Plot of the Results of the ENFA
scatter.esr Eigenanalysis of Selection Ratios
scatter.madifa The MADIFA: a Factorial Decomposition of the Mahalanobis Distances
scatterniche Display the Niche in the Ecological Space
schoener Compute Schoener's ratio
sd2df Handling of Trajectories of the Same Duration
set.limits Define the Same Time Limits for several Bursts in a Regular Trajectory
setmask Applies a Mask on Objects of Class 'asc' or 'kasc'
setNA Place Missing Values in Objects of Class 'ltraj'
sett0 Round the Timing of Collection of Relocations to Obtain Regular Trajectory
simm.bb Brownian bridge motion
simm.brown Simulate a Bivariate Brownian Motion
simm.crw Simulation of a Correlated Random Walk
simm.levy Simulates a Levy Walk
simm.mba Simulation of an Arithmetic Brownian Motion
simm.mou Simulation of a Bivariate Ornstein-Uhlenbeck Process
sliwinltr Apply a Function on an Object of Class "ltraj", Using a Sliding Window
speed Computes the Speed Between Successive Relocations of an Animal - Deprecated
spixdf2kasc Conversion of maps from/to the package "sp"
spol2area Conversion of maps from/to the package "sp"
squirrel Radio-Tracking Data of Squirrels
squirreloc Radio-tracking of squirrels
storemapattr Store Attributes of Maps of Class asc and kasc
subsample Subsample a Trajectory
subsetmap Storing a Part of a Map
summary.ltraj Working with Trajectories in 2D Space: the Class ltraj
summary.NNCH LoCoH (NNCH): Useful Functions
summary.traj Working with Trajects in 2D Space
summaryNAltraj Highlighting the Patterns in Missing Values in Trajects

-- T --

teal Teal (Anas crecca) Ring Recovery Dataset
testang.ltraj Testing Independence in Regular Trajectory Parameters
testdist.ltraj Testing Independence in Regular Trajectory Parameters
traj Working with Trajects in 2D Space
traj2df Working with Trajects in 2D Space
traj2ltraj Working with Trajectories in 2D Space: the Class ltraj
traj2sldf Conversion of maps from/to the package "sp"
traj2spdf Conversion of maps from/to the package "sp"
trajdyn Interactive Display of Objects of Class 'ltraj'
typeII2typeI Change the Type of a Trajectory

-- V --

vanoise Habitat Use by Three Species of Galliformes in the Vanoise National Parc
varlogfpt Computation of the First Passage Time From Trajectories

-- W --

wawotest Wald-Wolfowitz Test of Randomness
whale Argos Monitoring of Whale Movement
which.ltraj Identify Relocations Fullfilling a Condition in an Object of Class "ltraj"
wi Computation of Selection Ratios for Habitat Selection Studies.
widesI Computation of Selection Ratios for Habitat Selection Studies.
widesII Computation of Selection Ratios for Habitat Selection Studies.
widesIII Computation of Selection Ratios for Habitat Selection Studies.
wiI Computation of Selection Ratios for Habitat Selection Studies.
wiII Computation of Selection Ratios for Habitat Selection Studies.
wiIII Computation of Selection Ratios for Habitat Selection Studies.

-- misc --

[.ltraj Extract or Replace Parts of an Object of Class ltraj