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.