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isocat 0.3.0

New function

• New function makeMultiMonthIsoscape to combine multiple monthly isoscapes and error maps into one of each, for making month-specific isoscape assignments.

Tweaks

• schoenersD function now automatically normalizes surfaces to sum to 1, rather than just advising it in the documentation.
• corrected documentation parameter names in .assignmentMaker

isocat 0.2.6

Publication update

• Publication introducing some of isocat’s functionalities is out.
• Package citation is created, update. See citation("isocat").
• Updated package description with links, typo fixes.

Vignette improvements

• Added some additional text on transfer functions

isocat 0.2.5

Rewrote function isotopeAssignmentModel

• Function now checks for identical projections and resamples secondary models automatically.
• Multiple secondary models can be incorporated as a rasterStack.
• Replaced parallelization package with parallel::mcmapply.
• Removes bug where secondary models not created when running in parallel.

Minor tweaks

• Remove now-unnecessary import of package dplyr.
• Resolved bug in vignette example by adding ‘stringsAsFactors = FALSE’ to example dataframe.
• Removed defunct class test for individual IDs from meanAggregateClusterProbability function.

isocat 0.2.4

Optimize ‘cumsumbelow’ function

• Function deals with NA values more efficiently.
• When imported into makeCumSumSurface, function iterates faster over RasterLayers.
• Removed dependency on purrr::map and pipe operators within function.
• The purrr package removed from suggested packages.

Bug fix for R 4.0.0

• Modified conditional class check within cumsumAtSamplingLocation and clusterSimmatrix functions, in anticipation of change to matrix objects inheriting from class “array” (which broke old class check code).

Vignette updated

• Vignette updated, examples improved, enable stage-skipping with working examples.

Minor tweaks

• Tweaked package title.
• Added ‘additionalModel_name’ argument to isotopeAssignmentModel.
• Added ‘seealso’ and ‘alias’ components to function documentation.
• Fixed typo in examples for makeQuantileSimulationSurface function.
• Clarified function description for schoenersD function.
• Tweaked wording in example for cumsumAtSamplingLocation function.

isocat 0.2.3

Bug fixes

• Updated data file to realistic isoscape standard deviations.
• Fixed dependency / import issues throughout.
• Adjusted file names for cross-platform compatibility.
• Replaced references to superseded snow package with calls to parallel.

Vignette updated

• Vignette updated, TODO’s resolved.

Minor Tweaks

• Expanded DESCRIPTION metadata.
• Resolved spelling errors and improved style throughout package.
• Fixed broken/suspect email and IsoMAP links.
• Corrected donttest wrappers on long analyses.
• Added examples to several functions.
• Switched from ‘installed.packages’ to ‘!requireNamespace’ to check for package loading.

isocat 0.2.2

Vignette Included

• Added vignette with descriptions and example applications of all functions.

New Functions

• New suite of functions for working with cumulative sums: cumsumbelow, makeCumSumSurface, cumsumAtSamplingLocation.
• Added a meanAggregateClusterProbability function to create mean probability-of-origin map based on cluster assignments (for individuals of similar origin).
• Added projectSummarySurface function to show which RasterLayer in a stack has highest value at any given location.

Bug fixes

• Fixed minor issue with running makeQuantileSimulationSurface on object of class RasterLayer.
• Updated clusterSimmatrix function to match pvclust version 2.0-1 with debug of r parameter.
• Replaced buggy projectCluster function with alternative function (projectSummarySurface; see isocat vignette).

isocat 0.2.1

New Functions

• Added a schoenersD function that compares the spatial similarity of two surfaces.
• Added a makeQuantileSimulationSurface function that converts a surface to a quantile-simulation surface.

Minor Tweaks

• Improved code readability within several functions.

isocat 0.2.0

• Added a NEWS.md file to track changes to the package.
• Renamed package from IsoModAT (Isotope Models of Animal Origin Analytical Toolset) to isocat (Isotope Clustering and Assignment Tools).
• Specified CC0 license.

New Functions

• Added a makeQuantileSurface function to converts normalized probability surfaces to quantile surface. Matches makeOddsSurface.
• Added a oddsAtSamplingLocation function that finds odds ratios of origin probability at a set of coordinates within a normalized probability surface. Matches quantileAtSamplingLocation.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.