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NEWS.md

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bsam 1.1.3

  • fixed missing lc = "F" class for fixed (e.g., GPS locations) in dat4jags. This causes models to crash when lc = "F" in data.
  • replaced deprecated tibble functions as_data_frame and data_frame with as_tibble and tibble, respectively
  • fixes an issue where join on data and tpar by 'lc' may error due to incompatible ordered factor types

bsam 1.1.2

  • fixed indexing on priors for initial location state. A sufficiently short time step could cause the hierarchical models to crash on compilation.

bsam 1.1.1

  • fixed the mis-ordering of animal id's in the summary and data output data.frames caused when a hierarchical model was fit to a dataset with >= 10 individuals

bsam 1.1.0.9000

  • changed diag_ssm plot so that diagnostic panels for psi parameters are split into multiple pages of 5 rows/page when fitting a hierarchical model. Previous version packed all the psi diagnostic plots into a single page

bsam 1.1.0

  • major bug fix - data indexing when fitting hierarchical models was causing improper fits to multi-individual datasets with > 2 individuals. Indexing now works as intended
  • Added simulate function
  • Prevented individual animal tracks from being re-ordered by split function so output track order now matches input track order

bsam 1.0.1.9003

  • added list of initial values to the output list object. Making these available can aid diagnosing lack of convergence and inform choice of span argument value for generating location state initial values

bsam 1.0.1.9002

  • added get_summary function to extract summary data_frame from fit_ssm output objects. The data_frame can optionally be written to a .csv file

bsam 1.0.1.9001

  • added sp and rworldxtra back to Imports list in DESCRIPTION. Ensures all required packages are installed, otherwise map_ssm will return an error when attempting to load countriesHigh data if sp and/or rworldxtra are not installed

bsam 1.0.1.9000

  • removed sp and rworldxtra from Imports

  • added BugReports URL to DESCRIPTION

bsam 1.0.0

  • Simplified movement models by removing the mean turn angle parameter. This tends to improve convergence for the behavioural switching models

  • Simplified the regularisation / interpolation in the observation models

  • Simplified data preparation code

  • Diagnostic plots (renamed from diagSSM to diag_ssm) now include the Gelman-Rubin-Brooks shrink factor plots for each parameter

  • New mapping function (map_ssm) uses coastline data from rworldxtra and ggplot2 for core plotting functions

  • New plot function (plot_fit) to inspect fit to location data

  • Renamed core function fitSSM to fit_ssm

  • Improved selection of random initial values for MCMC sampling

  • Initial values for location states are now based on a loess smooth through the observed locations. Users can control the degree of smoothing via the span argument to fit_ssm

bsam 0.43.1 (pre-CRAN release)

  • ported from source 2016-05-27 [email protected]

  • converted to use roxygen2

  • Added a NEWS.md file to track changes to the package.

f <- "http://web.science.mq.edu.au/~ijonsen/code/bsam_0.43.1.tar.gz"
download.file(f, basename(f), mode = "wb")
system(sprintf("tar zxvf %s", basename(f)))
Rd2roxygen::Rd2roxygen("bsam")