goeveg 0.7.9

• syntable(): Fixes in fidelity calculation when using the u-value; added Fishers’s exact test to exclude non-significant fidelity
• syntable(): Added options for standardization of sample group size
• hcr_resampling(): Added checks for groups limits
• Harmonized terminology between synsort() and syntable(): Both refer to groups instead of clusters now.

goeveg 0.7.8.

• New function hcr_resampling() to perform heterogeneity-constrained random (HCR) resampling (Lengyel, Chytrý & Tichý, 2011)
• syntable(): Added new options of fidelity calculation (u-value and Ochiai index); improved speed using more vectorised computations
• syntable(): Added option to calculate synoptic tables from long-format vegetation data; implemented with data.table for faster performance on large databases.
• synsort(): Added method = "totalfreq" (order species by overall frequency) and method = "manual" (order by a user-supplied vector).
• synsort(): The species–sample matrix is no longer returned by default (for faster performance on large datasets); set samples = TRUE to include it.
• synsort(): Added cluster_order to select and order cluster columns; columns not listed are omitted.

goeveg 0.7.6

• per2cov(): Fixed a mistake leading to wrong cover value assignments in specific cases

goeveg 0.7.5

• syntable(): Added argument to define number of decimal places in results
• clean_matrix(): Empty cell values are transformed to 0; fixed to work correctly with non-numeric values in data tables

goeveg 0.7.4

• cov2per and per2cov: Added option to transform with individual scales per sample
• trans_matrix(): Added option rmchar to remove the first character of the original column names

goeveg 0.7.3

• New function clean_matrix() to remove species without occurrences (frequency = 0) and samples without species from a species matrix in one simple step
• New function trans_matrix() to transpose a species matrix, while preserving correct species and sample names.
• Simplified function merge_taxa() with increased performance
  • Added option backtransform to decide whether cover-abundance values should be kept as percentage cover or back-transformed into original cover-abundance values
  • Option drop_zero renamed to clean_matrix and set on FALSE by default
• cov2per: Fixed an error when providing a data frame with only one column as community data
• syntable: Fixed an unnecessary warning message occurring at cover value transformation

goeveg 0.7.2

• Cover-abundance scales:
  • Added scale “niwap” from Lower Saxony species survey programmes (Schacherer 2001)
  • Added x-value to presence/absence scale
• merge_taxa():
  • returns names of merged taxa only once (not for each relevé)
  • added option drop_zero to decide whether species without occurrences or empty samples should be removed or kept
  • fixed an error when providing individual scales for each sample
• syntable() and merge_taxa() automatically repair imported tables with empty character values (““)

goeveg 0.7.1

• syntable() can now handle factorial variables for defining clusters, e.g. to summarize relevés according to pre-defined categories and is more flexible regarding the format of the community matrix
• Terminology was harmonized between different functions

goeveg 0.7.0

• New functions added:
  • merge_taxa() for merging taxa/species with identical names
  • cov2per() and per2cov() for conversion between cover-abundance codes and percentage cover
• dimcheckMDS() is renamed into screeplot_NMDS() with enhanced description and progress bar

goeveg 0.6.5

• Fixed wrong species labeling in racurve() when freq = TRUE

goeveg 0.6.4

• Added functions deg2rad() and rad2deg() for conversion between radians and degrees
• Updated data table schedenenv

goeveg 0.6.3

• Fixed wrong p-value calculation for GLMs in specresponse()
• Fixed problem with NAs in specresponse() when showing point values

goeveg 0.6.2

• Added na.action argument to specresponse()

goeveg 0.6.1

• Explained deviances and p-values are now printed in specresponse(). Full model results are returned in an (invisible) object.
• Added functionality to select the least abundant (rarest) species in ordiselect()

goeveg 0.6.0

• (Re-)added functions for calculation and sorting of synoptic tables: syntable() and synsort()
• Comprehensive update for ordiselect(). Now returns exact proportion of selected species. Correction in selection to axis fit limits. Variable fit now only works with factor centroids.
• Updated help pages

goeveg 0.5.1

• Fixes in references and value tags

goeveg 0.5.0

• Removal of functions synsort() and syntable() due to unsolved incompatibilities

goeveg 0.4.4

• Added lwd argument for specresponse()

goeveg 0.4.3

• Added xlim & ylim arguments for racurve()
• Added na.rm argument for ordiselect()

goeveg 0.4.2

• Small fixes, fixed package dependencies
• Spell checking

goeveg 0.4.1

• Added new functions for calculation and sorting of synoptic tables: syntable() and synsort()

goeveg 0.3.3

• Fixes in documentation

goeveg 0.3.2

• Merged specresponses()/specresponse() into one single function specresponse()
• Better selection method of polynomial GLMs and GAMs in specresponse()

goeveg 0.3.1

• Fixed use of external functions (gam(), rdist())
• Max. of 3 polynomials in automatic GLM selection of specresponse()

goeveg 0.3.0

• Fixed and renewed function specresponse()/specresponses(): now works also with NMDS, includes zero values and is based on presence/absence data (logistic regression). Instead of cubic smoothing splines the function now uses GLMs/GAMs.

goeveg 0.2.0

• Added functionality to use frequencies in racurve()
• Added functionality to label species in racurve()
• New (invisible) output in racurve()
• Package checked and tested on OS X

goeveg 0.1.7

• Added functionality for labeling species in racurve()
• Corrected spelling mistakes

goeveg 0.1.6

• First CRAN release