Dr. Christen H. Fleming (curriculum vitae)

Contact Information

Continuous-Time Movement Modeling

  1. J. M. Calabrese, C. H. Fleming, E. Gurarie, "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)
  2. M. J. Noonan, M. A. Tucker, C. H. Fleming, et al, "A comprehensive analysis of autocorrelation and bias in home range estimation", Ecological Monographs, 10.1002/ecm.1344 (2018)
  3. 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)
  4. 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, 571-579 (2016)
  5. C. H. Fleming, D. Sheldon, W. F. Fagan, P. Leimgruber, T. Mueller, D. Nandintsetseg, M. J. Noonan, K. A. Olson, E. Setyawan, A. Sianipar, J. M. Calabrese, "Correcting for missing and irregular data in home-range estimation", Ecological Applications 28:4, 1003-1010 (2018)
  6. K. Winner, M. J. Noonan, C. H. Fleming, K. Olson, T. Mueller, D. Sheldon, J. M. Calabrese, "Statistical inference for home range overlap", Methods in Ecology and Evolution, 9:7, 1679-1691 (2018)
  7. 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 97:3, 576-582 (2016)
  8. 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)
  9. C. H. Fleming, D. Sheldon, E. Gurarie, W. F. Fagan. S. LaPoint, J. M. Calabrese, "Kalman filters for continuous-time movement models", Ecological Informatics 40, 8-21 (2017)
  10. 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)
  11. 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 10.1186/s40462-016-0084-7 (2016)
  12. G. Péron, C. H. Fleming, R. C. de Paula, N. Mitchell, M. Stronbach, 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)
  13. C. H. Fleming, Y. Subasi, J. M. Calabrese, "A maximum-entropy description of animal movement", Physical Review E 91, 032107 (2015)

ctmm R package (Initiative/CRAN/Github/Reference/Group)

This CRAN package has most everything you need to estimate the home ranges of range-resident animals: from variogram movement-model visualization, to maxmimum-likelihood movement-model estimation, to autocorrelated kernel-density home-range estimation and Kriged occurrence estimation. In the future, more analyses will be rolled into this package.

Here I archive different versions of the package and (on request) host development verions for users that cannot install via devtools.

VersionRelease DateUpdates
0.5.5β 2019-02-09 summary.ctmm bugfix for timescale CIs (source package; Windows binary)
0.5.4 2019-02-07 ctmm.select issue fix for OUO/OUf models
0.5.3 2019-01-31 oscillatory and critically dampled OUF models, speeds, ...
0.5.2 2018-09-10 error model selection, uere.fit,...
0.5.1 2018-08-14 micro unit support, ctmm.select feature building, uere residuals,...
0.5.0 2018-05-15 ARGOS error ellipse support, outlie, median,...
0.4.2 2018-02-15 AIC bugfix for circular covariance, speed, ctmm.boot,...
0.4.1 2017-08-30 projection method, CRAN compliance.
0.4.0 2017-08-29 periodogram vignette, unit conversion method %#%, parameter boundary bugfixes, ...
0.3.6 2017-04-23 correlogram (acf), extent, writeRaster, multivariate AICc, ...
0.3.5 2017-02-01 unit conversion options, progress tracing, occurrence bugfix, ...
0.3.4 2016-11-28 AKDE weights, overlap bugfix, ...
0.3.3 2016-09-05 UERE bugfixes, improved move compatibility, ...
0.3.2 2016-05-12 overlap estimator, UERE estimator, area-corrected AKDE, further improved AKDE CIs, ...
0.3.1 2016-02-23 oscillatory and circulation models, improved AKDE CIs, various bugfixes, ...
0.3.0 2015-11-26 Kriged occurrence distribution, basic model selection, AKDE & HR methods and options cleanups, ...
0.2.9 2015-10-13 FFT Lomb-Scargle periodogram, multiscale variogram, import fix, ...
0.2.8 2015-08-25 Import, variogram fixes, ...
0.2.7 2015-07-27 CRAN compliant and published. Methods and options cleanups.
0.2.6 2015-07-17 Export fixes
0.2.5 2015-07-14 IOU fixes
0.2.4 2015-06-28 various usability features, ...
0.2.3 2015-06-19 import fix, likelihood underflow fix, BM & IOU model support, ...
0.2.2 2015-05-21 minimal periodogram functionality, ...
0.2.1 2015-05-08 export functions, timezone fix, ...
0.2.0 2015-04-27 vignettes "variogram" and "akde", contour fix, ...