Cheerful Orange Orangutan

The prior release (2.1.2) was archived on CRAN during my transition to McDonald Data Sciences due to loss of access to the maintainer's emails address. Version 3.0.0 represents a substantial update.

Change Summary

• BIGGEST CHANGE: Measurement units are now required on all distances
  (e.g., off-transect distances, strip widths, study area size, etc.),
  and it is possible to specify output units.
  Unit conversion makes use of the units package, is internal, and automatic.
• One-sided Transects: Added the ability to analyze single-sided transects
  by setting singleSided = TRUE in call to abundEstim.
• User Requested: Added computation of bootstrap confidence intervals
  for effective sampling distances (ESW and EDR).
• NA Length Transects: NA length transects are now allowed. Observations
  on NA length transects are used to estimate distance functions, but are dropped
  when estimating density. This allows, for example, off-transect distance observations
  from one study area or year to estimate a distance function which is then applied
  to the observations from another study area or year.
• Added calculation of target density (number per unit area)
  to abundEstim, and it is included in bootstrapping.
• Allowed expansion terms and covariates in the same distance function.
• Renamed uniform likelihood to logistic. Uniform is now deprecated.
• Added covariates to Gamma likelihood estimation.
• Change in default parameter: Changed default value of area in
  abundEstim from 1 to NULL. NULL now translates to 1 square output
  unit.
• Added color to print methods. Results are in green, if the R terminal
  allows it (i.e., in Rstudio, but not R gui). Errors are in red.
• Reformatted default output to include target density and abundance when
  printing an abund object.
• Fixed bug in F.gx.estim that occasionally popped up when sighting
  function was monotonically decreasing.
• Updated starting values for faster estimation.
• Decreased lower limit of negexp likelihood parameter to achieve more valid
  fits.
• Warning messages now report which parameters are at their boundary,
  and which boundary (lower or upper).
• Bug fixes:
  • Fixed issue with contrasts in model.matrix
  • Fixed issue of no observations during bootstrapping
  • Fixed issues with changing scale locations (i.e., x.scl and g.x.sxl)
  • Fixed ESW for w.lo > 0
  • Restricted likelihood values to be positive
• Substantial documentation updates
• Substantial testing facilities added.

Barely Angry Caterpillar

Bug fixes

Version 2.1.3 addressed the following issues:

• Fixed scaling error in the Gamma likelihood causing mode to be less than 1.0
• Fixed inverted plots that occured when w.lo > 0 (left-trunctation)
• Fixed bug in autoDistSamp when bySite=TRUE
• Fixed bug causing bootstrap failure of point transect surveys
  when siteData contained only one column

Brave Andy Bear

Corrected a critical error in point survey method

Brave Adam Ant

The current version represents a major update. Primary new features include:

• point transect analysis (1.3.2 only allowed line transects)
• covariates in the detection function (1.3.2 did not allow covariates).
• non-parametric (smoothed) distance functions
• enhanced plotting abilities
• enhanced vignettes

Archie Charlie Brandenberg

This release implements a transect level density option whereby density on transects can be output and analyzed further.

Binary build

Available on CRAN.

Archie Brooke Brandenberg

Release notes

• Fixed issue with R versions less than 3.0.1 and use of `anyNA()' function. References to this function were removed.
• Updated and polished vignettes have been added.

Binary build

Available on CRAN.

Archie Brooke Alfredo

This release is a culmination of bug fixes and enhancements by Ben Augustine and Jason Carlisle. Contrary to previous versions, this version takes two data frames, one for distances and another for transects. The sparrow vignette is based on Jason Carlisle's graduate studies at the University of Wyoming.