announcing secr 2.5.0

announcements (new versions, changes, bugs, installation problems...) related to program DENSITY and the R package secr

announcing secr 2.5.0

Postby murray.efford » Wed Jan 23, 2013 9:19 pm

This new version of the R package for spatially explicit capture–recapture includes major extensions for time-varying detector-specific effort (non-binary usage), for discretizing detections along transects (snip), and for aggregating nearby detectors (reduce.capthist ‘span’ argument).

Variable non-binary usage works like an offset in glm models. This can remove the need to model time-varying detector-level covariates, and allows the seamless analysis of quite ragged datasets. Details are provided in a new vignette (secr-varyingeffort.pdf), and in a forthcoming paper by Efford and Borchers. Non-binary usage slows down model fitting; it is hoped to fix this in future releases.

Functions for plotting probability density contours of home-range centres (fxi) have been improved, and several other bugs have been fixed. See http://cran.r-project.org/web/packages/secr/ NEWS for details.

Models for binomial count detectors are now parameterised in terms of the detection probability (g0 = p) rather than the expected number of detections (g0 = p.binomN); the estimated g0 from secr.fit(), and output from sim.capthist(), will therefore differ from previous versions for these models.

Windows and Mac binaries should be available on CRAN in a day or so.

Murray
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