aniMotum: Fit Continuous-Time State-Space and Latent Variable Models for Quality Control of Argos Satellite (and Other) Telemetry Data and for Estimating Changes in Animal Movement

[rociojoo]

Are you the author of the package?

No

Is the package on a specific repository?

GitHub

Please provide the URL of the package repository

https://github.com/ianjonsen/aniMotum/

Is there a dedicated website for the documentation (e.g. a pkgdown website)?

https://ianjonsen.r-universe.dev/aniMotum

If you are the author of the package, does it pass CRAN check tests?

No

Additional information

Briefly, can you describe the purpose of this package and how it fits into the Tracking CTV? Fits continuous-time random walk, correlated random walk and move persistence state-space models for location estimation and behavioural inference from animal tracking data ('Argos', processed light-level 'geolocation', 'GPS'). Template Model Builder ('TMB') is used for fast random-effects estimation. The 'Argos' data can be: (older) least squares-based locations; (newer) Kalman filter-based locations with error ellipse information; or a mixture of both. The models estimate two sets of location states corresponding to: 1) each observation, which are (usually) irregularly timed; and 2) user-specified time intervals (regular or irregular). A track re-routing function is provided to adjust location estimates for known movement barriers. Track simulation functions are provided. Latent variable models are also provided to estimate move persistence from track data not requiring state-space model filtering.

In terms of the tracking workflow (see Figure in the CTV), where does the package fit? (Feel free to mention any particular functions and how they fit as well.)

• Track simulation from RW models and fitted SSM https://ianjonsen.r-universe.dev/articles/aniMotum/Track_simulation.html
• Path reconstruction with SSM (state-space models) with fit_ssm
• It computes a metric called movement persistence but it's based on the model, so I wouldn't put it under post-processing.

[rociojoo]

added to Tracking_tbl.csv

[rociojoo]

It doesn't pass CRAN tests. There was one warning ‘qpdf’ is needed for checks on size reduction of PDFs and a few notes on

• Specified C++11: please drop specification unless essential
• A few subdirectories of more than 1 Mb
• ‘mapproj’ ‘rnaturalearthdata’ ‘rnaturalearthhires’ ‘rosm’ are declared as imports but not really imported
• Package unavailable to check Rd xrefs: ‘trip’ See checks/check_logs/aniMotum_check.log