Changes in version 1.3.1 - intensity code is IN DEVELOPMENT - new home-range index() function - rsf.fit() and rsf.select() now work on pkde() population weights - mean() now works when range=FALSE - pkde() can now take fixed weights - pkde() now has a finite population correction argument - agde() now works on multiple individuals - as.telemetry() can now import light-level geolocator error ellipses - as.telemetry() no longer requires strict Argos formatting - proximity() CIs improved from F to beta sampling distribution - pkde() weights now passed to mean.ctmm() - overlap() can now take non-stationary mean models - bugfix in akde() for a list of fixed weights - bugfix in outlie() for error ellipses Changes in version 1.3.0 (2025-07-26) - new revisitation() mean revisitation rate estimate - sdm.fit() and sdm.select() now support camera-trap and other count data - emulate() and simulate() can now draw individual ctmms from an estimated population - new dispatch method projection()<- for ctmm class objects - new functions pd.solve(), pd.logdet(), pd.sqrtm() for covariance matrix operations - new default method "ECDF" for function encounter() - periodic mean functions now estimate frequency - periodic mean summary now uses beta CIs - mean.ctmm() now works on periodic means - new mean.ctmm() argument 'formula' for functional response estimation - new grid argument dr.fn in akde(), occurrence(), pkde() - as.telemetry() now imports ATLAS error ellipses - new ctmm.boot() argument 'clamp' - new convex argument 'options' - new geometric mean ratio estimates in meta() and improvements for small DOFs - mean() of occurrence() now time weighted by default - mean() can now accept non-stationary mean models - new plot method: plot.ctmm() - new outlie() argument 'units' - plot() argument 'col.DF' renamed to 'col.UD' - speedups in Kalman filter for irregularly sampled - improvements in ctmm.fit() method="pREML" on unsupported parameters - improvements DOF[area] calculations in mean() and pkde() - improvement to optimizer() when initial guess is on a boundary and hessian is bad - improvements to Argos-GPS importing in as.telemetry() - bugfix in annotate() by="sundial" - bugfix in plot.telemetry() argument error=3 - bugfix in speed() for nearly fractal movement models - bugfix in polygon export from bad output from grDevices::contourLines() - bugfixes in rsf.select with formulas - bugfix in raster factor expansion with more than one raster factor - bugfix in normal meta-analysis REML correction - bugfixes in suitability with grid projection, NA raster values, and categorical variables - bugfixes in mean.ctmm() - bugfix in contour exports with convex=TRUE - bugfix in transition() Changes in version 1.2.0 (2023-09-23) - new function names: cde() and encounter() replacing encounter() and rates() - new functions rsf.select(), intensity() - new functions sdm.fit(), sdm.select() - new function writeVector(), depreciating function writeShapefile() - new function funnel() for funnel plots - new function midpoint() - new population covariance models and improved model selection in mean.ctmm() - new argument 'sqrt' in distance() - new argument 'dt.hot' in as.telemetry() - new argument 'variable' in Log() - new argument 'compute' in ctmm.loglike() - new argument 't' in proximity() - as.telemetry() now supports GBIF format data - as.telemetry() datum argument now works on UTM import, and is no longer to a be a complete PROJ string - as.telemetry() timeformat='auto' now default - as.telemetry(), plot.telemetry(), rsf.fit() updated from sp to sf transforms - distance() can now take location arguments - plot.telemetry() col.DF & col.level arguments can now be color() lists - suitability() now produces a raster stack corresponding to the CIs - suitability() on population RSFs now outputs the population suitability - suitability() extrapolation disabled - bugfix in tbind for conflicting location classes - bugfix in suitability() - bugfix in distance() method="Euclidean", debias=TRUE - bugfix in rates() debias=TRUE - bugfix in summary() of population mean location DOF - bugfix in distances() for 0/0 - bugfix in UD polygon export for tiny areas - as.telemetry() UTM import updated to new PROJ specification - mean.ctmm() improved convergence, numerical stability, and covariance selection - meta() stability improvements for tiny DOF estimates, and OUf support - overlap() and meta() can now extract object names - pkde(...) -> akde(...) -> bandwidth(...) -> mean(...) arguments now passed - rsf.fit() AICc formula improved Changes in version 1.1.0 (2022-11-04) - new function pkde() for population kernel density estimates - new functions difference(), distances(), proximity() for estimating distances between individuals - new functions Log(), Exp() to log transform parameter estimates and their uncertainties for meta-analytic regression - new functions dimfig(), sigfig() to represent quantities with concise units and significant digits - new argument 'sample' in mean() - new argument 'interpolate' in rsf.fit() - new arguments 'xlim', 'ylim' to plot.outlie() - numerical stability improvements in rsf.fit optimization and hessian calculations - numerical convergence improvements in location error fitting - numerical convergence improvements in AKDE weight optimization - plot.telemetry() can now subset and reproject rasters - bugfix in sp::polygon derived areas (used since v1.0.0 for summary, plot, meta) - bugfix in agde(), suitability(), akde() when reprojecting onto the same raster - bugfix in mean() when averaging isotropic and anisotropic models together - bugfix in speeds() without telemetry object - bugfix in cluster() with 0/0 bias correction error - bugfix in occurrence() with multiple error classes - bugfix in chi dof computation - bugfix in outlie() for error ellipses - summary() now works on mean.ctmm() outputs from different input model structures (OUF & OUO) - fixed log-chi^2 bias correction in mean.ctmm() Changes in version 1.0.0 (2022-07-12) - new function rsf.fit() to fit integrated resource selection functions (iRSFs) with autocorrelation-adjusted weighted likelihood - new function mean.ctmm() to calculate population average movement models - new function revisitation() to calculate the distribution of revisitations - new function npr() to calculate non-parametric spatial regressions - new function agde() to calculate autocorrelated Gaussian distribution estimates, with RSF support - new function suitability() to calculate suitability rasters from RSF fit objects - new function rates() to calculate relative encounter rates - new function dt.plot() to inspect sampling intervals - akde() and occurrence() now support RSF-informed kernels and boundary-respecting kernels - summary.ctmm() now outputs diffusion rate estimates - new argument variable for meta() to estimate population diffusion rates, mean speeds, and autocorrelation timescales - new arguments R and SP in plot.telemetry() and plot.UD() for plotting raster and shapefile base layers - new option method="Encounter" in overlap() - mean.UD() now propagates uncertainties - mean.UD() now functions on occurrence distributions - new convex argument to UD summary(), plot(), and export functions - plot() and raster() now work on 3D UDs - plot.outlie() now works on lists of outlie objects - speed() output now includes DOF estimate for use with meta() - tbind() now works correctly with different projections and calibrations - %#% unit conversion operator can now interpret products and ratios - summary() timescale confidence intervals are now gamma/inverse-gamma more inline with meta() - progress bar added to optimizer() when trace=1 - bugfix in IID area CIs - bugfix in ctmm.loglike() when fitting multiple error classes, where some are zero - bugfix in ctmm.boot() when bias estimate exceeds variance parameter - bugfixes in 3D akde() - bugfix in time gridding code when dt is coarse - bugfix in SpatialPoints.telemetry for single individuals Changes in version 0.6.1 (2021-07-28) - ctmm.fit() can now fit multiple UERE parameters and update uncertain calibration parameter estimates - new function cluster() - new function video() - new function as.sf() - new function tbind() - new argument VMM in simulate(), predict() - new argument timeformat="auto" in as.telemetry() - new argument verbose in meta() - uere()<- can now assign posterior/updated error estimates from ctmm model objects - bugfix in ctmm.loglike() for circle!=0 and REML - bugfixes in optimzer() - bugfix in ctmm.fit() for 1D processes - bugfix in variogram.fit() for 1D processes - bugfixes in simulate(), predict for 1D processes - bugfix in ctmm.fit() with zero variance models - bugfix in meta() colors when sort=TRUE - bugfixes in ctmm.guess(), ctmm.fit(), speed() for tiny amounts of data - bugfixes in occurrence(), Kalman smoother for IOU process - ctmm.select() now stores IC and MSPE information for summary() - extent objects now include missing columns - extent object longitudes can now cross the international date line Changes in version 0.6.0 (2021-01-10) - new function meta() for meta-analysis of home-range areas - new function encounter() for the conditional distribution of encounters (CDE) - new function distance() to calculate square Bhattacharyya, Mahalanobis, and Euclidean distances - new function compass() to plot a north-pointing compass - new argument 't' in speed() - new argument 'axes' in outlie() - as.telemetry() now accepts most tibble objects - akde() on multiple individuals is now more memory efficient - bugfix in ctmm.fit() for IOU model - bugfix in occurrence() with repeated timestamps - bugfix in summary.ctmm() rowname droped for single parameter CIs - bugfix in outlie() with list input - bugfixes in plot.outlie with zero error - bugfix in variogram() with res>1 and CI="Gauss" - bugfix in ctmm.select() if stepping OU->OUf->OUF - bugfix in as.telemetry() for Move objects with empty idData slot - bugfix in as.telemetry(), median() when importing single location estimate - bugfix in plot.telemery() with add=TRUE and non-SI units - bugfix in speed() for ctmm objects (no data), where CIs were incorrect - bugfix in median() with >=50% repeating observations - bugfix in summary() for periodic models with tau[velocity]==0 - bugfix in occurrence() for PDclamp() error - bugfix in ctmm.select() giving incorrect model names when run indirectly - bugfix in occurrence() with IID autocorrelation model - workaround in export functions where sp objects change timezones - workaround in as.telemetry() when Move idData() names are dropped - workaround in plot.UD() when image() has alpha overflow - improvements to akde(), occurrence() grid argument when incomplete - improvements to overlap() Wishart approximation in bias correction - improvements to cleave() Changes in version 0.5.10 (2020-05-07) - as.telemetry() location class code improved - as.telemetry() message for marked outliers - jaguar data in sync with ctmmweb Changes in version 0.5.9 (2020-03-23) - new argument CI="Gauss" in variogram() - new argument weights in mean.UD() - new argument datum in as.telemetry() -- input and ouput datums can now differ - new data 'jaguar' - bugfix in ctmm.select() for infinte loop - improvements in ctmm.select, ctmm.loglike for collapsing variance/error estimates - rewrite of optimizer's line search to be more exact & reliable - improvements in optimizer for degenerate likelihood surfaces - improvements in optimization for bad covariance estimates---fit object structure changed - bugfix in uere.fit with multiple location classes in different orders - bugfix in speed when fast=FALSE and sampled models lose features - bugfix in IID pREML CIs - bugfix in ctmm.guess with large errors causing eigen() to fail - bugfix in optimizer expansion search step size not increasing - bugfix in as.telemetry() -- MoveStack objects are given a common projection if not projected Changes in version 0.5.8 (2019-12-11) - improvements to ctmm.select() stepwise selection, especially with error and/or circulation - improvements to ctmm.fit() for nearly linear home ranges - improvements to %#% operator -- units of speed supported - bugfix in ctmm.loglike() for BM/IOU models with error - new argument units in plot.outlie() - new options(time.units='mean') and options(time.units='calendar') for %#% operator and display units - ctmm.select() no longer warns when model features are not supported (ctmm.fit does) - compatibility fix for R version 4 Changes in version 0.5.7 (2019-10-07) - new function optimizer() - new function SpatialPolygonsDataFrame.telemetry() for location estimate error circles/ellipses - 'pNewton' now the default optimization method - 'pHREML' now the default estimator & all CI names updated - grid argument now supported in akde and occurrence methods - outlie() output now includes CIs with plot method - error-adjusted variogram implemented when fast=FALSE - LOOCV now supported in ctmm.select(), summary() - new buffer argument in occurrence() - head(), tail() methods for telemetry objects - str() method for ctmm objects - new data object 'pelican' - SpatialPointsDataFrame now includes timestamp - uere(data) <- numeric now overrides all location classes - improved support for ARGOS-GPS hybrid data - missing DOP values now correctly treated as separate location class - bugfix in conditional simulations with dt argument - bugfix in plot.UD gridlines - bugfix in as.telemetry timeout argument when datasets lack timed-out values - stability fixes in ctmm.fit() for BM/IOU models - further stability enhancements in ctmm.loglike() and optimizer - bugfix in simultaneously fit RMS UERE CIs - AICc formulas fixed for tiny n - reduced Z^2 now exactly normalized in UERE objects - minor enhancements to cleave() function - as.telemetry() no longer automatically calibrates e-obs errors (inconsistent with newer devices) - as.telemetry() no longer complains on reverse-time-ordered files Changes in version 0.5.6 (2019-05-15) - new functions lasso, marquee, and cleave - new functions annotate and color - summary can now compare joint UERE objects to lists of individualized UERE objects - support for UTM locations in as.telemetry - support for GPS-ARGOS hybrid data in as.telemetry & uere.fit - new plot option ext for extent objects - increased numerical precision in ctmm.loglike for 0 < dt << tau, including the limit OU/OUF -> BM/OU - BM/IOU model likelihoods are now exact limits of OU/OUF likelihoods modulo a constant - covariance matrices can now take arbitrary eccentricty and scale - ctmm.boot new argument iterate=FALSE and bugfixes for iterate=TRUE - ctmm.boot now debiases the covariance matrix directly (linearly) - occurrence default dt.max & cor.min arguments now tighter - periodogram functionality restored for one-dimensional data - bugfix in IID ctmm.fit with elliptical errors - bugfix in occurrence when projection origin is far from the mean location - bugfix in akde.list where location errors were not smoothed - bugfix in ctmm.guess/variogram.fit for BM/IOU models - bugfix in speed for IOU models - e-obs calibration cross checked and fixed - ctmm.loglike now returns -Inf when movement and error variance are zero - stability improvements to base R optimizer usage - bugfix in mark.rm argument of as.telemetry - cores option added to ctmm.select - only physical cores now counted by cores arguments - cores option now used in Windows when appropriate - improvements to speed, speeds, ctmm.select for short tracks of data Changes in version 0.5.5 (2019-02-11) - bugfix in summary where timescale CIs were always (0,Inf) - ctmm.select default now level=1 - summary on UERE lists now works with more than one axis - R dependency increased to >=3.5 for parallel functions Changes in version 0.5.4 (2019-02-08) - bugfix in ctmm.select where OU was not considered over the new OUO/OUf models introduced in v0.5.3 - bugfix in ctmm.boot for heteroskedastic errors - multiplicative option depreciated from ctmm.boot Changes in version 0.5.3 (2019-01-31) - oscillatory (and critically damped) OUO/OUf models now supported, starting with omega option of ctmm() - summary() now works on lists of UERE objects for error model selection - MSPE slots & arguments restructured and fully utilized in both summary and ctmm.select - new method speeds() for estimating instantaneous speeds - speed() more efficient on very coarse data, slightly improved CIs - new complete argument in simulate() and predict() to calculate timestamps and geographic coordinates - now avoiding fastPOSIXct timezone and epoch issues in as.telemetry - outlie() now works on lists of telemetry objects - bugfixes in overlap() CIs - overlap() now robust to bad model fits - new as.telemetry() argument mark.rm to delete marked outliers - bugfix in predict() & occurrence() where eccentricity was dropped from covariances - projection information in Move & MoveStack objects now preserved if possible - identities preserved with newer MoveStack objects - ctmm.boot() better handles parameter estimation near boundaries - e-obs data with missing error/speed/altitude now importing correctly in as.telemetry - correlogram plots now cap estimates to appropriate range - beta optimizer now more aggressive in searching along boundaries - bugfix in ctmm.fit with duplicate timestamps and IID processes without error - bugfix in ctmm.select with pREML & error - summary() on telemetry lists no longer fails on length-1 timeseries - years updated to tropical years and calendar days updated to stellar days Changes in version 0.5.2 (2018-09-10) - location classes (multiple UEREs) now supported by uere.fit() and uere()<- - uere() forked into separate uere() and uere.fit() methods - AICc slot included in UERE objects for error model selection - overlap() telemetry and CTMM arguments depreciated - fixed bug in as.telemetry() when importing ARGOS error ellipses - e-obs error calibration updated - numerical stability increased in ctmm.fit when distance scales are extreme Changes in version 0.5.1 (2018-08-07) - Units of measurement down to microns and microseconds now supported - ctmm.select() now builds up autocovariance features stepwise to help with fit convergence - residuals() can now be calculated from (calibrated) calibration data---diagnostic argument removed from uere() - summary.ctmm() now returns DOF[speed] information on individuals - MSPE of ctmm objects was previously w.r.t. in-sample times and is now time averaged - summary.list.ctmm() now returns MSPE when useful - new speed() argument robust for coarse data - options multiplicative & robust added to ctmm.boot to help with parameters near boundaries - E-OBS errors adjusted by empirical results of Scott LaPoint's calibration data - Telonics Gen4 errors estimates imported with results of Patricia Medici's calibration data --- Quick Fixes not yet fully supported - fixed critical bug in speed() - fixed bug in as.telemetry with projection argument - fixed bugs in ctmm.loglike when !isotropic && error && circle - fixed bug in emulate when fast=FALSE and error=TRUE - fixed bug in new variogram error calculations (v0.5.0) used for plotting - simultaneously fitted UERE's from ctmm slot "error" can now be assigned to data for plotting Changes in version 0.5.0 (2018-05-16) - Extensive re-write of the Kalman filter & smoother, now supporting an arbitrary number of spatial dimensions, necessary for ARGOS error ellipse support. (Previously, all multi-dimensional problems were transformed into multiple one-dimensional problems.) Many new models will be supported going forward, based on the v0.5.0 code. - telemetry error vignette "error" - ARGOS error ellipse support in ctmm.fit() and simulate() - plotted variogram errors now estimated from HDOP and no longer assumed to be homoskedastic - as.telemetry() default projections now use robust ellipsoidal statistics - new median.telemetry() method for help with projecting data - (anisotropic & circulation & error) models now exact with 2D Kalman filter & smoother - simulate() & predict() velocities now correct with mean="periodic" - units argument in speed() - REML and related methods fixed from 0.4.X 1/2 bug - ctmm.loglike COV[mu] bugfix for circular error & elliptical movement - summary() rotation % bugfix with circle=TRUE - parameter boundary bugfix in ctmm.fit() and ctmm.loglike() - fixed bandwidth() bug when weights=TRUE on IID process - variogram.fit() manipulate more appropriate with calibrated errors - fixed bug in plot.variogram for isotropic model fits - fixed bug in ctmm.fit with fitted errors and any(diff(t)==0) - fixed bug in plot.variogram() from stats::qchisq() with k<<1 Changes in version 0.4.2 - new speed() method - new ctmm.boot() method - new outlie() method - new export functionality for telemetry class - overlap debias=TRUE option (approximate) - pHREML, pREML, HREML ctmm.fit methods implemented and documented - IID pREML & REML AICc values implemented - MSPE values implemented - new uere()<- assignment method - velocity esimtates now included in predict() [fitting one model to multiple behaviors can result in wildly optimistic confidence intervals] - velocities now included in simulate() - simulate precompute option - as.telemetry drop=TRUE option - as.telemetry will no longer drop individuals with missing data columns - as.telemetry will try to approximate DOP values - as.telemetry imports velocity vectors - as.telemetry default projection orientation now robust with GmedianCOV - plot.UD resolution grid less obnoxious, NA/FALSE contour label option - plot.telemetry error=0:3 options for data with recorded error circles/ellipses - plot.telemetry velocity=TRUE option for data with recorded velocities - plot.variogram bugfixes with telemetry errors - fixed AIC bug in new parameterization code (0.4.0-0.4.1) where isotropic=TRUE model would never be selected - fixed rare endless loop in akde/bandwidth with weights=TRUE - outlier removed from buffalo$Cilla Changes in version 0.4.1 (2017-08-30) - projection method for ctmm objects Changes in version 0.4.0 (2017-08-29) - periodigram vignette - new utility function %#% for unit conversions - new model-fit sampling function "emulate" - summary now works on lists of telemetry objects - new extent method for variogram objects - bugfixes in plot.variogram with fit UERE, tau==0 - bugfixes with ctmm.fit/select/summary near boundaries - resetting Polak–Ribiere formula in weighted AKDE conjugate gradient routine - read.table fallback in as.telmetry - R 3.4 compatibility fixes - various improvements to plot.variogram - plot.UD & export can now accept multiple level.UD values - increased numerical precision in ctmm.loglike - SI speeds & diffusion fixed with units=FALSE Changes in version 0.3.6 (2017-04-24) - AICc formulas updated from univariate to multivariate - ctmm.select more aggressive on small sample sizes where AICc >> AIC - new residuals and correlogram functions - ctmm.fit now has unified options controling optimization & differentiation - ctmm.fit Hessian and pREML calculations 2x faster - new writeRaster method for UD objects - better UD plot boxes with new extent methods - variogram fast=TRUE less biased for irregular data with new res>1 option - variogram fast=FALSE more robust to irregularity - akde() can now handle duplicate times (with an error model) - plot.variogram bugfix for fixed error models [still not quite correct] - Column name preferences in as.telemetry - as.telemetry faster with fread & fastPOSIXct - new trace option for ctmm.fit - new labels option for plot.UD - more robust CIs for pREML, REML - chi-square CIs (area, semi-variance, etc.) more robust when DOF<1 Changes in version 0.3.5 (2017-02-03) - added a FAQ page to the documentation help("ctmm-FAQ") - bugfix in occurrence method for BM & IOU models - unit conversion can now be disabled in summary with units=FALSE argument - added trace option to ctmm.select & bandwidth/akde - improved telemetry error support in summary.ctmm and plot.variogram - as.telemetry more robust to alternative column label capitalizations - ctmm.loglike & ctmm.fit more robust when tau_velocity ~ tau_position - Kalman filter & smoother upgraded to Joseph form covariance updates Changes in version 0.3.4 (2016-11-30) - weighted AKDE implemented, fast option, covered in vignette - overlap arguments & ouput changed/generalized - method akde.bandwidth renamed to bandwidth inline with S3 standards - predict now returns covariance estimates - occurrence distributions now exportable - AKDE overlap bugfixes - summary.ctmm now returns correct RMS speed - bugfix for eccentricity errors - variogram CIs fixed for odd dimensions - variogram.fit can now accept OU models - periodogram rare index bugfix - fixed missing lag in dt-argumented variogram - as.telemetry column identification more robust - as.telemetry defined for MoveStack objects Changes in version 0.3.3 (2016-09-06) - improved import of 'move' objects - preliminary 3D AKDE support, debiased - new method predict for ctmm objects - akde now supports smoothing errors - variogram.fit and plot.variogram now support telemetry error - UERE fitting now possible simultaneous with tracking data - tag.local.identifier now used as backup to individual.local.identifier in as.telemetry - multiple bug fixes in uere - res.space fixed in occurrence Changes in version 0.3.2 (2016-05-14) - new function overlap for stationary Gaussian distributions and KDEs - new function uere calculates UERE from calibration data - akde debias argument removes most bias from area estimtes, now default - akde CIs further improved - variogram, periodogram generalized to arbitrary dimensions - periodic mean function option for ctmm, ctmm.fit, ctmm.select, plot.variogram, summary (not yet documented) - new method residuals for ctmm objects - ctmm.select now only considers likely model modifications - DOFs now returned in summary - new methods [.telemetry, [.variogram, [.periodogram, subset.periodogram - methods for zoom, raster, writeShapefile now properly assigned to generics - new plot.periodogram option max - new periodogram option res.time (with Lagrange interpolation). Old option res renamed to res.freq. - akde res argument is now relative to the bandwidth - occurrence res.space argument is now relative to the average diffusion - plot.telemetry with data error now uses level.UD for error radius instead of one standard deviation - gridding function for fast=TRUE variogram and periodogram now always fast - bad location removed from buffalo "Pepper" Changes in version 0.3.1 (2016-02-24) - variogram.fit now stores global variables of any name - variogram.fit sliders now use pretty units - variogram.fit range argument depreciated in favor of a more general CTMM prototype argument - akde UD CIs significantly improved for high quality datasets - akde bugfix: subscript out of bounds - circulatory model introduced via circle ctmm argument - oscillatory CPF model introduced via CPF ctmm argument - as.telemetry now imports GPS.HDOP columns with a UERE argument - summary now works on arbitrary lists of ctmm objects - ctmm.fit now tries to make sense of ML parameters that lie on boundaries - occurrence() now works when some timesteps are tiny Changes in version 0.3.0 (2015-11-28) - new function "occurrence" to estimate occurrence distributions - "akde" & "occurrence" class objects generalized to "UD" class - alpha & alpha.HR arguments simplified and generalized to level & level.UD - AKDE= and *.HR= arguments generalized to UD= and *.UD= - new basic telemetry error functionality in ctmm, ctmm.fit - new function ctmm.select - new methods subset.telemetry and subset.variogram - fixed a bug in the uncertainty report of uncorrelated processes - ctmm.fit is now much faster by specifying a reasonable parscale for optim - ctmm.fit now has a backup for when Brent fails Changes in version 0.2.9 (2015-10-14) - fixed a rare condition in ctmm.fit where solve would fail on correlated errors - multiscale variogram and mean variogram example in vignette - new data example Mongolian gazelle - new fast option for periodogram - improvements in plot.periodogram - bugfix in as.telemetry for numeric indentifiers - bugfix in dt array option of variogram - new resolution option and better estimation algorithms in akde - alpha, alpha.HR, res arguments made consistent across all functions Changes in version 0.2.8 (2015-08-26) - efficiency gains in as.telemetry with multiple animals - bugfix in plot.telemetry for multiple Gaussian PDFs - bugfix in variogram for rare condition when fast=TRUE Changes in version 0.2.7 (2015-07-31) - CRAN check compliance achieved. - all methods (plot, mean, summary, simulate) can and must be run without class extensions - argument names no longer clash with function names and are more explicit about their object class Changes in version 0.2.6 - export bugfixes Changes in version 0.2.5 - IOU bug fixes in ctmm.fit and plot.variogram Changes in version 0.2.4 - cleaned up and labeled tau parameter arrays - implemented Workaround for when subset demotes S4 objects to S3 objects - plot.telemetry now enforces asp=1 even with xlim/ylim arguments Changes in version 0.2.3 - new function summary.telemetry - bugfix in as.telemetry for data$t - bugfix in ctmm.loglike for some cases with numeric underflow - periodogram and plot.periodogram can now check for spurious periodicities - minimal support for BM and IOU motion Changes in version 0.2.2 - new functions periodogram, plot.periodogram Changes in version 0.2.1 - new function SpatialPoints.telemetry returns SpatialPoints object from telemetry data - new function SpatialPolygonsDataFrame.akde returns akde home-range contour SpatialPolygons objects from akde object - new function writeShapefile.akde writes akde home-range contours to ESRI shapefile - new function raster.akde returns akde pdf raster object - new function summary.akde returns HR area of AKDE - fixed bad CI in plot.telemetry model option - as.telemetry now takes a timezone argument for as.POSIXct and defaults to UTC - telemetry, ctmm, and akde objects now have idenification and projection information slotted, with consistent naming throughout Changes in version 0.2.0 - vignettes "variogram" and "akde" - new function as.telemetry imports MoveBank formatted csv data and returns telemetry objects - new function variogram.zoom plots a variogram with zoom slider - variogram.fit and variogram.zoom default to a logarithmic-scale zoom slider, which requires much less fiddling - plot.variogram now takes multiple variogram, model, and color options - plot.telemetry now takes multiple data, model, akde, and color options - plot.telemetry can now make probability density plots for both Gaussian model and akde data - ctmm.fit no longer screws up results with initial sigma guesstimates. ML parameter estimates now match closely with published Mathematica results. CIs are improved. - ks-package was producing incorrect home-range contours and has been replaced with custom code. ML home ranges now match published Mathematica results. CIs should be improved.