amt0.2.2.0 package

Animal Movement Tools

append_x1

Append "_x1"

as.data.frame.uhc_data

Coerce a uhc_data object to data.frame

as_sf_lines

Export track to lines

as_sf_points

Coerces a track to points

as_track

Coerce to track

available_distr

Display available distributions for step lengths and turn angles.

bandwidth_pi

hr_kde_pi wraps KernSmooth::dpik to select bandwidth for kernel de...

bandwidth_ref

Reference bandwidth

bbox

Get bounding box of a track.

boot1

Single bootstrap iteration

bootstrap_logrss

Bootstrap log-RSS estimate

calc_w

Calculate w(x)

calculate_sdr

Calculate SDR

centroid

Calculate the centroid of a track.

check_factors

Check factor levels

check_time_unit

Calculate Speed

coercion

Coerce a track to other formats.

conf_envelope

Create confidence envelopes from a uhc_data_frame

convert_angles

Converts angles to radians

coords

Coordinates of a track.

cum_ud

Calculate a cumulative UD

diff

Difference in x and y

distr_name

Name of step-length distribution and turn-angle distribution

distributions

Functions create statistical distributions

extent

Extent of a track

Extract.uhc_data

Subset a uhc_data object

extract_covariates

Extract covariate values

filter_min_n_burst

Filter bursts by number of relocations

fit_clogit

Fit a conditional logistic regression

fit_ctmm

Fit a continuous time movement model with ctmm

fit_distr

Fit distribution to data

fit_logit

Fit logistic regression

flag_defunct_clusters

Flag Defunct Clusters

flag_duplicates

Flag Low Quality Duplicates

flag_fast_steps

Flag Fast Steps

flag_roundtrips

Flag Fast Round Trips

from_to

Duration of tracks

get_amt_fisher_covars

Helper function to get fisher covars

get_crs

Obtains the Coordinate Reference Systems

get_displacement

Calculate Expected Displacement

get_distr

Obtain the step length and/or turn angle distributions from random ste...

get_max_dist

Get the maximum distance

get_sh_forest

Helper function to get forest cover

has_crs

Check for Coordinate Reference Systems (CRS)

hr_area

Home-range area

hr_isopleths

Home-range isopleths

hr_kde_lscv

Least square cross validation bandwidth

hr_kde_ref_scaled

Select a bandwidth for Kernel Density Estimation

hr_overlap_feature

Calculate the overlap between a home-range estimate and a polygon

hr_overlaps

Methods to calculate home-range overlaps

hr_to_sf

Convert home ranges to sfc

hr_ud

Obtain the utilization distribution of a probabilistic home-range esti...

hrest

Home ranges

inspect

Inspect a track

issf_drop_stratum

Create formula without stratum from iSSF

issf_w_form

Create habitat formula from iSSF

log_rss

Calculate log-RSS for a fitted model

make_issf_model

Create an issf-model object from scratch

make_start

Create an initial step for simulations

movement_metrics

Movement metrics

nsd

Net squared displacement (nsd)

od

Occurrence Distribution

params

Get parameters from a (fitted) distribution

plot.hr

Plot a home-range estimate

plot.log_rss

Plot a log_rss object

plot.uhc_data

Plot UHC plots

plot.uhc_envelopes

Plot simplified UHC plots

plot_sl

Plot step-length distribution

prep_test_dat

Prepares test_dat for uhc_prep()

prep_uhc

Prepare Data for UHC Plots for a Fitted Model

random_numbers

Sample random numbers

random_points

Generate random points

random_steps

Generate Random Steps

random_steps_simple

Simulate from an ssf model

range

Geographic range

redistribution_kernel

Create a redistribution kernel

reexports

Objects exported from other packages

remove_capture

Removes Capture Effects

remove_incomplete_strata

Remove strata with missing values for observed steps

sampling_period

Extract sampling period

sdr

Calculate SDR for an Object

simulate_path

Simulate a movement trajectory.

site_fidelity

Test for site fidelity of animal movement.

speed

Speed

ssf_formula

Takes a clogit formula and returns a formula without the strata an...

ssf_weights

Given a fitted ssf, and new location the weights for each location is ...

steps

Functions to create and work with steps

summarize_sampling_rate

Returns a summary of sampling rates

summarize_sl

Summarize step lengths

summarize_speed

Summarize speed

time_of_day

Time of the day when a fix was taken

track

Create a track_*

track_resample

Resample track

tracked_from_to

Subset to tracking dates

transform_coords

Transform CRS

trast

Create a template raster layer

ua_distr

Summarize distribution of used and available

update_distr

Update movement distributions

update_distr_man

Manually update amt_distr

Manage and analyze animal movement data. The functionality of 'amt' includes methods to calculate home ranges, track statistics (e.g. step lengths, speed, or turning angles), prepare data for fitting habitat selection analyses, and simulation of space-use from fitted step-selection functions.