shar - shar v2.3.1

• Various
  • Update Docs

Scientific Software - Peer-reviewed - R
Published by mhesselbarth 12 months ago

shar - shar 2.3

• Improvements
  • Option to return fitted parameters during fit_point_process
  • Using NA instead of "NA"
• Various
  • Iterations and stopping criterion are vectors instead of list during reconstruct_algorithm

Scientific Software - Peer-reviewed - R
Published by mhesselbarth almost 2 years ago

shar - shar v2.2.1

• Improvements
  • Simplify roxygen2 docs

Scientific Software - Peer-reviewed - R
Published by mhesselbarth almost 2 years ago

shar - shar v2.2

• Improvements
  • Added a new function reconstruct_pattern_multi()

Scientific Software - Peer-reviewed - R
Published by mhesselbarth almost 2 years ago

shar - shar 2.1.1

Bugfixes (thanks to @baddstats)

Scientific Software - Peer-reviewed - R
Published by mhesselbarth about 2 years ago

shar - shar 2.1

• Improvements
  • Remove comp_fast argument
  • Speed improvements of computation
  • General updates to code structure
• Bugfixes
  • Removed n_points and window argument from reconstruction due to methodological issues
  • Bugfix related to wrap/unwrap raster and printing

Scientific Software - Peer-reviewed - R
Published by mhesselbarth about 2 years ago

shar - shar 2.0.4

• Improvements
  • Remove Sys.sleep for verbose reconstruction

Scientific Software - Peer-reviewed - R
Published by mhesselbarth over 2 years ago

shar - shar 2.0.3

• Improvements
  • Allow fixed max r distance during pattern reconstruction

Scientific Software - Peer-reviewed - R
Published by mhesselbarth almost 3 years ago

shar - shar v2.0.2

• Various
  • Update spatstat dependency

Scientific Software - Peer-reviewed - R
Published by mhesselbarth about 3 years ago

shar - shar v2.0.1

• Improvements
  • Better approach for external repo
• Various
  • Fixing typo in maintainer name

Scientific Software - Peer-reviewed - R
Published by mhesselbarth about 3 years ago

shar - shar v2.0.0

• Using terra instead of raster
• Adding pack_randomized() and unpack_randomized() due to terra saving behavior
• Naming raster values "layer"

Scientific Software - Peer-reviewed - R
Published by mhesselbarth over 3 years ago

shar - shar v1.3.2

• Improvements
  • Improvement of classify_habitats() to be more variable
  • Adding breaks argument to results_habitat_association()
  • Adding classint_to_vector() helper function
  • Include new spatstat package structure

Scientific Software - Peer-reviewed - R
Published by mhesselbarth over 3 years ago

shar - shar 1.3.1

shar 1.3.1

• Improvements
  • Bugfix in plot.rd_pat() and plot.rd_mar()
  • Adding internal sample_randomized() function used during plotting

Scientific Software - Peer-reviewed - R
Published by mhesselbarth almost 4 years ago

shar - shar v1.3

shar 1.3

• Improvements
  • Better documentation
  • Combine reconstruct_pattern_homo(), reconstruct_pattern_cluster(), and reconstruct_pattern_hetero() to reconstruct_pattern()
  • Replaced plot_randomized_*() function with generic plot() methods
  • Adding warnings and errors if NA values are present
    
• New functionality
  • list_to_randomized() function
  • Parallelization article
• Adding JOSS paper as reference

Scientific Software - Peer-reviewed - R
Published by mhesselbarth about 4 years ago

shar - shar: A R package to analyze species-habitat associations using point pattern analysis

JOSS Publication

Release for Journal of Open Source Software Publication. For the review process, please see openjournals/joss-reviews#3811.

Citation

Hesselbarth, M.H.K., (2021). shar: A R package to analyze species-habitat associations using point pattern analysis. Journal of Open Source Software, 6(67), 3811. https://doi.org/10.21105/joss.03811

Scientific Software - Peer-reviewed - R
Published by mhesselbarth about 4 years ago

shar - shar v1.2.1

shar 1.2.1

• Improvements
  • reconstruct_pattern_homo() has arguments to specify number of points and window
  • reconstruct_pattern_marks() allows to have different number of points for pattern and marked_pattern argument

Scientific Software - Peer-reviewed - R
Published by mhesselbarth about 4 years ago

shar - shar 1.2

shar 1.2

• Improvements
  • Include new spatstat package structure
  • Use GPL3 License

Scientific Software - Peer-reviewed - R
Published by mhesselbarth almost 5 years ago

shar - shar v1.0.1

shar 1.0.1

• Improvements
  • No calculation of energy for printig (too slow)

Scientific Software - Peer-reviewed - R
Published by mhesselbarth over 6 years ago

shar - shar v1.0

shar 1.0

• Improvements
  • Printing methods for most objects
  • Possibility to specify intervals of r for all reconstruction functions
• New functionality
  • plot_energy() to plot energy over iterations for reconstructed patterns
  • reconstruct_pattern_hetero() allows to reconstruct heterogeneous patterns
• Renameing/Structure
  • reconstruct_pattern() was split to three functions: reconstruct_pattern_homo(), reconstruct_pattern_hetero(), reconstruct_pattern_cluster(),
  • reconstruct_marks() is now called reconstruct_pattern_marks()

Scientific Software - Peer-reviewed - R
Published by mhesselbarth over 6 years ago

shar - shar v0.5

shar 0.5

• Improvements
  • Annealing probability can be specified for reconstruction

Scientific Software - Peer-reviewed - R
Published by mhesselbarth over 6 years ago

shar - shar v0.4

shar 0.4

• Improvements
  • Easier user experience because classes are used to specify provided input
  • results_habitat_associations() checks if extent of inputs is identical
  • reconstruct_marks() and calculate_energy() use now weights for the summary functions
• Bugfixes
  • Bug in calculate_energy() for reconstructed marks

Scientific Software - Peer-reviewed - R
Published by mhesselbarth over 6 years ago

shar - shar v0.3.1

shar 0.3.1

• Improvements
  • Better structure of vignettes
  • Adding CONTRIBUTING.md
  • Trying to fix some failing tests for older R versions

Scientific Software - Peer-reviewed - R
Published by mhesselbarth over 6 years ago

shar - shar v0.3

shar 0.3

• Improvements
  • plot_randomized_pattern() now uses envelopes to plot randomized summary functions
  • plot_randomized_pattern() includes a quantum bar
  • plot_randomized_pattern() now can return plots after each other (Press )
  • calculate_engery() can also calculate the energy for marked reconstructions
  • Improved warning messages
• Bugfixes
  • Explicitly C++11 compiler
• New functionality
  • plot_randomized_pattern() to plot randomized rasters

Scientific Software - Peer-reviewed - R
Published by mhesselbarth almost 7 years ago

shar - shar v0.2

shar 0.2

• Improvements
  • Replaced cat() with message() for all printing to console
  • All defaults set to n_random = 1
  • comp_fast argument equals TRUE if number of points exceed threshold
  • reconstruct_pattern() stops if energy did not decrease for n iterations
  • reconstruct_marks() stops if energy did not decrease for n iterations
  • plot_randomized_pattern() can also plot point patterns
• Bugfixes
  • Bug in fit_point_process() that more points as present could be removed from simulated pattern
  • Bug in reconstruct_pattern() that more points as present could be removed from simulated pattern

Scientific Software - Peer-reviewed - R
Published by mhesselbarth almost 7 years ago

shar - shar v0.1

shar 0.1

• First submission to CRAN

Scientific Software - Peer-reviewed - R
Published by mhesselbarth almost 7 years ago