Interface to other packages with amt

Getting the data ready

First we load the required libraries and the relocation data (called deer)

library(amt)
data("deer")
deer

## # A tibble: 826 x 4
##          x_       y_ t_                  burst_
##  *    <dbl>    <dbl> <dttm>               <dbl>
##  1 4314068. 3445807. 2008-03-30 00:01:47      1
##  2 4314053. 3445768. 2008-03-30 06:00:54      1
##  3 4314105. 3445859. 2008-03-30 12:01:47      1
##  4 4314044. 3445785. 2008-03-30 18:01:24      1
##  5 4313015. 3445858. 2008-03-31 00:01:23      1
##  6 4312860. 3445857. 2008-03-31 06:01:45      1
##  7 4312854. 3445856. 2008-03-31 12:01:11      1
##  8 4312858. 3445858. 2008-03-31 18:01:55      1
##  9 4312745. 3445862. 2008-04-01 00:01:24      1
## 10 4312651. 3446024. 2008-04-01 06:00:54      1
## # … with 816 more rows

`adehbatit*`

adehabitatLT_ltraj <- as_ltraj(deer)
adehabitatLT_ltraj

## 
## *********** List of class ltraj ***********
## 
## Type of the traject: Type II (time recorded)
## * Time zone: UTC *
## Irregular traject. Variable time lag between two locs
## 
## Characteristics of the bursts:
##         id    burst nb.reloc NAs          date.begin            date.end
## 1 animal_1 animal_1      826   0 2008-03-30 00:01:47 2009-04-28 00:00:21
## 
## 
##  infolocs provided. The following variables are available:
## [1] "pkey"

`ctmm`

With the function as_telemetry a track_xyt can be coerced to a telemetry object used in ctmm.

ctmm_obj <- as_telemetry(deer)
class(ctmm_obj)

## [1] "telemetry"
## attr(,"package")
## [1] "ctmm"

`move`

move_obj <- as_move(deer)
move_obj

## class       : Move 
## features    : 826 
## extent      : 4309723, 4318383, 3442716, 3450713  (xmin, xmax, ymin, ymax)
## crs         : +init=epsg:3035 +proj=laea +lat_0=52 +lon_0=10 +x_0=4321000 +y_0=3210000 +ellps=GRS80 +towgs84=0,0,0,0,0,0,0 +units=m +no_defs 
## variables   : 1
## names       : burst_ 
## min values  :      1 
## max values  :     35 
## timestamps  : 2008-03-30 00:01:47 ... 2009-04-28 00:00:21 Time difference of 394 days  (start ... end, duration) 
## sensors     : unknown 
## indiv. data :  
## indiv. value:  
## date created: 2020-06-12 07:54:28.890004

Session

sessioninfo::session_info()

## ─ Session info ───────────────────────────────────────────────────────────────
##  setting  value                       
##  version  R version 4.0.0 (2020-04-24)
##  os       Ubuntu 19.10                
##  system   x86_64, linux-gnu           
##  ui       X11                         
##  language en_US:en                    
##  collate  C                           
##  ctype    en_US.UTF-8                 
##  tz       Europe/Berlin               
##  date     2020-06-14                  
## 
## ─ Packages ───────────────────────────────────────────────────────────────────
##  package      * version  date       lib source        
##  ade4           1.7-15   2020-02-13 [3] CRAN (R 4.0.0)
##  adehabitatLT   0.3.25   2020-01-19 [3] CRAN (R 4.0.0)
##  adehabitatMA   0.3.14   2020-01-13 [3] CRAN (R 4.0.0)
##  amt          * 0.1.2    2020-06-14 [1] local         
##  assertthat     0.2.1    2019-03-21 [3] CRAN (R 4.0.0)
##  backports      1.1.7    2020-05-13 [3] CRAN (R 4.0.0)
##  boot           1.3-25   2020-04-26 [6] CRAN (R 4.0.0)
##  callr          3.4.3    2020-03-28 [3] CRAN (R 4.0.0)
##  checkmate      2.0.0    2020-02-06 [3] CRAN (R 4.0.0)
##  CircStats      0.2-6    2018-07-01 [3] CRAN (R 4.0.0)
##  circular       0.4-93   2017-06-29 [3] CRAN (R 4.0.0)
##  class          7.3-17   2020-04-26 [6] CRAN (R 4.0.0)
##  classInt       0.4-3    2020-04-07 [3] CRAN (R 4.0.0)
##  cli            2.0.2    2020-02-28 [3] CRAN (R 4.0.0)
##  codetools      0.2-16   2018-12-24 [6] CRAN (R 4.0.0)
##  colorspace     1.4-1    2019-03-18 [3] CRAN (R 4.0.0)
##  crayon         1.3.4    2017-09-16 [3] CRAN (R 4.0.0)
##  ctmm           0.5.10   2020-05-07 [3] CRAN (R 4.0.0)
##  DBI            1.1.0    2019-12-15 [3] CRAN (R 4.0.0)
##  DEoptimR       1.0-8    2016-11-19 [3] CRAN (R 4.0.0)
##  desc           1.2.0    2018-05-01 [3] CRAN (R 4.0.0)
##  devtools       2.3.0    2020-04-10 [3] CRAN (R 4.0.0)
##  digest         0.6.25   2020-02-23 [3] CRAN (R 4.0.0)
##  dplyr        * 1.0.0    2020-05-29 [3] CRAN (R 4.0.0)
##  e1071          1.7-3    2019-11-26 [3] CRAN (R 4.0.0)
##  ellipsis       0.3.1    2020-05-15 [3] CRAN (R 4.0.0)
##  evaluate       0.14     2019-05-28 [3] CRAN (R 4.0.0)
##  fansi          0.4.1    2020-01-08 [3] CRAN (R 4.0.0)
##  farver         2.0.3    2020-01-16 [3] CRAN (R 4.0.0)
##  fitdistrplus   1.1-1    2020-05-19 [3] CRAN (R 4.0.0)
##  fs             1.4.1    2020-04-04 [3] CRAN (R 4.0.0)
##  generics       0.0.2    2018-11-29 [3] CRAN (R 4.0.0)
##  geosphere      1.5-10   2019-05-26 [3] CRAN (R 4.0.0)
##  ggplot2      * 3.3.1    2020-05-28 [3] CRAN (R 4.0.0)
##  glue           1.4.1    2020-05-13 [3] CRAN (R 4.0.0)
##  Gmedian        1.2.5    2020-03-02 [3] CRAN (R 4.0.0)
##  gtable         0.3.0    2019-03-25 [3] CRAN (R 4.0.0)
##  htmltools      0.4.0    2019-10-04 [3] CRAN (R 4.0.0)
##  httr           1.4.1    2019-08-05 [3] CRAN (R 4.0.0)
##  KernSmooth     2.23-17  2020-04-26 [6] CRAN (R 4.0.0)
##  knitr        * 1.28     2020-02-06 [3] CRAN (R 4.0.0)
##  labeling       0.3      2014-08-23 [3] CRAN (R 4.0.0)
##  lattice        0.20-41  2020-04-02 [6] CRAN (R 4.0.0)
##  lifecycle      0.2.0    2020-03-06 [3] CRAN (R 4.0.0)
##  lubridate    * 1.7.9    2020-06-08 [3] CRAN (R 4.0.0)
##  magrittr       1.5      2014-11-22 [3] CRAN (R 4.0.0)
##  MASS           7.3-51.6 2020-04-26 [6] CRAN (R 4.0.0)
##  Matrix         1.2-18   2019-11-27 [6] CRAN (R 4.0.0)
##  memoise        1.1.0    2017-04-21 [3] CRAN (R 4.0.0)
##  move           4.0.0    2020-06-03 [3] CRAN (R 4.0.0)
##  munsell        0.5.0    2018-06-12 [3] CRAN (R 4.0.0)
##  mvtnorm        1.1-1    2020-06-09 [3] CRAN (R 4.0.0)
##  pillar         1.4.4    2020-05-05 [3] CRAN (R 4.0.0)
##  pkgbuild       1.0.8    2020-05-07 [3] CRAN (R 4.0.0)
##  pkgconfig      2.0.3    2019-09-22 [3] CRAN (R 4.0.0)
##  pkgload        1.1.0    2020-05-29 [3] CRAN (R 4.0.0)
##  prettyunits    1.1.1    2020-01-24 [3] CRAN (R 4.0.0)
##  processx       3.4.2    2020-02-09 [3] CRAN (R 4.0.0)
##  ps             1.3.3    2020-05-08 [3] CRAN (R 4.0.0)
##  purrr          0.3.4    2020-04-17 [3] CRAN (R 4.0.0)
##  R6             2.4.1    2019-11-12 [3] CRAN (R 4.0.0)
##  raster       * 3.1-5    2020-04-19 [3] CRAN (R 4.0.0)
##  Rcpp           1.0.4.6  2020-04-09 [3] CRAN (R 4.0.0)
##  remotes        2.1.1    2020-02-15 [3] CRAN (R 4.0.0)
##  rgdal          1.5-10   2020-06-09 [3] CRAN (R 4.0.0)
##  rlang          0.4.6    2020-05-02 [3] CRAN (R 4.0.0)
##  rmarkdown      2.2      2020-05-31 [3] CRAN (R 4.0.0)
##  robustbase     0.93-6   2020-03-23 [3] CRAN (R 4.0.0)
##  rprojroot      1.3-2    2018-01-03 [3] CRAN (R 4.0.0)
##  RSpectra       0.16-0   2019-12-01 [3] CRAN (R 4.0.0)
##  scales         1.1.1    2020-05-11 [3] CRAN (R 4.0.0)
##  sessioninfo    1.1.1    2018-11-05 [3] CRAN (R 4.0.0)
##  sf             0.9-3    2020-05-04 [3] CRAN (R 4.0.0)
##  sp           * 1.4-2    2020-05-20 [3] CRAN (R 4.0.0)
##  stringi        1.4.6    2020-02-17 [3] CRAN (R 4.0.0)
##  stringr        1.4.0    2019-02-10 [3] CRAN (R 4.0.0)
##  survival       3.2-3    2020-06-13 [3] CRAN (R 4.0.0)
##  testthat       2.3.2    2020-03-02 [3] CRAN (R 4.0.0)
##  tibble         3.0.1    2020-04-20 [3] CRAN (R 4.0.0)
##  tidyr          1.1.0    2020-05-20 [3] CRAN (R 4.0.0)
##  tidyselect     1.1.0    2020-05-11 [3] CRAN (R 4.0.0)
##  units          0.6-6    2020-03-16 [3] CRAN (R 4.0.0)
##  usethis        1.6.1    2020-04-29 [3] CRAN (R 4.0.0)
##  utf8           1.1.4    2018-05-24 [3] CRAN (R 4.0.0)
##  vctrs          0.3.1    2020-06-05 [3] CRAN (R 4.0.0)
##  withr          2.2.0    2020-04-20 [3] CRAN (R 4.0.0)
##  xfun           0.14     2020-05-20 [3] CRAN (R 4.0.0)
##  xml2           1.3.2    2020-04-23 [3] CRAN (R 4.0.0)
##  yaml           2.2.1    2020-02-01 [3] CRAN (R 4.0.0)
## 
## [1] /tmp/RtmpDWvEdW/Rinst2870bad8323
## [2] /tmp/Rtmp7akg2M/temp_libpath170578c93874
## [3] /home/jsigner/R/x86_64-pc-linux-gnu-library/4.0
## [4] /usr/local/lib/R/site-library
## [5] /usr/lib/R/site-library
## [6] /usr/lib/R/library

Interface to other packages with `amt`

Johannes Signer

2020-06-14

About

Getting the data ready

`adehbatit*`

`ctmm`

`move`

To `sf` and `sp`

Session

Interface to other packages with amt

Johannes Signer

2020-06-14

About

Getting the data ready

adehbatit*

ctmm

move

To sf and sp

Session

Interface to other packages with `amt`

`adehbatit*`

`ctmm`

`move`

To `sf` and `sp`