ctmm-package: Continuous-time movement modeling

Description Details Author(s) References

Description

Functions for identifying, fitting, and applying continuous-space, continuous-time stochastic movement models to animal tracking data. The package is described in Calabrese & Fleming (2016) <doi:10.1111/2041-210X.12559> and its methods are based on those introduced in Fleming et al (2014) <doi:10.1086/675504>, Fleming et al (2014) <doi:10.1111/2041-210X.12176>, Fleming et al (2015) <doi:10.1890/14-2010.1>, Fleming et al (2016) <doi:10.1890/15-1607>, Péron et al (2016) <doi:10.1186/s40462-016-0084-7>, Fleming & Calabrese (2016) <doi:10.1111/2041-210X.12673>, Péron et al (2017) <doi:10.1002/ecm.1260>, and Fleming et al (2017) <doi:10.1016/j.ecoinf.2017.04.008>.

Details

Package: ctmm
Type: Package
Version: 0.4.1
Date: 2017-08-30
License: GPL-3

Author(s)

Christen H. Fleming and Justin M. Calabrese

Maintainer: Christen H. Fleming <[email protected]>

References

C. H. Fleming, J. M. Calabrese, T. Mueller, K.A. Olson, P. Leimgruber, W. F. Fagan. From fine-scale foraging to home ranges: A semi-variance approach to identifying movement modes across spatiotemporal scales. The American Naturalist, 183:5, E154-E167 (2014).

C. H. Fleming, J. M. Calabrese, T. Mueller, K. A. Olson, P. Leimgruber, W. F. Fagan. Non-Markovian maximum likelihood estimation of autocorrelated movement processes. Methods in Ecology and Evolution, 5:5 462-472 (2014).

C. H. Fleming, Y. Subasi, J. M. Calabrese. A maximum-entropy description of animal movement. Physical Review E, 91, 032107 (2015).

C. H. Fleming, W. F. Fagan, T. Mueller, K. A. Olson, P. Leimgruber, J. M. Calabrese. Rigorous home-range estimation with movement data: A new autocorrelated kernel-density estimator. Ecology, 96:5, 1182-1188 (2015).

J. M. Calabrese, C. H. Fleming. ctmm: an R package for analyzing animal relocation data as a continuous-time stochastic process. Methods in Ecology and Evolution, 7:9, 1124-1132 (2016).

C. H. Fleming, W. F. Fagan, T. Mueller, K. A. Olson, P. Leimgruber, J. M. Calabrese. Estimating where and how animals travel: An optimal framework for path reconstruction from autocorrelated tracking data. Ecology, DOI:10.1890/15-1607 (2016).

G. Péron, C. H. Fleming, R. C. de Paula, J. M. Calabrese. Uncovering periodic patterns of space use in animal tracking data with periodograms, including a new algorithm for the Lomb-Scargle periodogram and improved randomization tests. Movement Ecology, 4:19, DOI:10.1186/s40462-016-0084-7 (2016).

C. H. Fleming, J. M. Calabrese. A new kernel-density estimator for accurate home-range and species-range area estimation. Methods in Ecology and Evolution, 8:5, 571-579 (2016).

G. Péron, C. H. Fleming, R. C. de Paula, N. Mitchell, M. Strohbach, P. Leimgruber, J. M. Calabrese. Periodic continuous-time movement models uncover behavioral changes of wild canids along anthropization gradients. Ecological Monographs 87:3, 442-456 (2017)

C. H. Fleming, D. Sheldon, E. Gurarie, W. F. Fagan, S. LaPoint, J. M. Calabrese. Kálmán filters for continuous-time movement models. Ecological Informatics, 40, 8-21 (2017).


ctmm documentation built on Aug. 30, 2017, 5:07 p.m.