NEWS
vegtable 0.2.0
New Features
- New data set
veg_layers with information about vegetation layers.
- New function
new_layer() to add layer information tables in vegtable
objects.
Improvements
- Function
count_taxa() also inserts results into slot relations.
- New arguments
'level' and 'include_lower' in function crosstable()
They enable selection and/or merging of taxon ranks in cross tables.
- Function
cross2db() implemented in two methods, a data.frame-method
and a matrix-method.
- New parameter
keep_synonyms in function used_concepts(), which can be used
to skp synonyms in the output object.
Bug fixes
- Fuction
crosstable() was not applying properly the argument use_nas.
vegtable 0.1.8 (2023-03-14)
New Features
- New function
veg_diversity() and functions calculating diversity indices:
shannon(), evenness(), dominance(), simpson(), and richness().
- New function
new_relation() inserting new relations into vegtable objects.
This function is internally called by veg_relation().
- New function
df2coverconvert() coercing data frames and lists into
coverconvert objects.
Improvements
- Slot relations may deal with any element that can be coerced to
data.frame.
- All elements in slot syntax have to be of class
taxlist
- Parameter
in_header defined in several functions is set as
in_header = TRUE.
- Former method for 'aggregate()' is now defined in function 'veg_aggregate()'.
- Deprecated functions:
match_names(), merge_taxa(). These functions are now
exclusive for objects of class taxlist.
- Method
names() for vegtable objects will retrieve a list with all names
from the respective slots.
- New coercion methods including functions
as() and as<-.
- Functions
trait_proportion() and trait_stats() are also adding results to
the slot relations.
Bug Fixes
- An issue was solved for function
taxa2samples() when setting an argument in
the parameter 'merge_to', which was not properly working in all cases.
vegtable 0.1.7 (2021-10-13)
New Features
- New function
used_concepts() to extract taxon concepts that are occurring
in the plot observations.
- New function
cover_trans() in replacement of transform()
- New slot
syntax in vegtable objects.
show() and print() methods for objects vegtable, coverconvert,
and shaker.
Improvements
- In function
make_cocktail(), names of syntaxa are allowed to start with numerical values.
- Function
write_juice() includes a messages when working and with some
metadata for cross-check when importing in Juice.
- New arguments in function
taxa2samples() setting the levels to be included
in output object (include_levels) and to remove taxa without levels
(na.rm).
- Application of
subset() extended to content in slot relations.
- Function
vegtable2kml() was deprecated to resolve dependencies on GIS
packages associated to package plotKML.
- Validity checks allow plots in slot header without records in samples.
- Function
summary() also providing number of plots with records.
- Function
transform() deprecated and replaced by cover_trans().
Bug Fixes
- Files written by
write_juice() in Linux are now readable in Windows.
- In
clean() objects with no entries resulted in invalid objects.
- Bug in
count_taxa() for aggregating ranks with missing records for lower
taxa.
vegtable 0.1.6 (2020-04-30)
Improvements
- Documentation implemented in
roxygen2.
- New argument
preserve_ids in function add_releves().
Bug Fixes
- Function
count_taxa() adapted to the current package taxlist.
vegtable 0.1.5 (2020-01-13)
New Features
- New function
relation2header().
- New functions
trait_stats() and trait_proportion().
Improvements
- New argument
add_traits in function taxa2samples().
- Output of
count_taxa(), formula-method, indicates the counted rank in the output.
- Adjusted settings in function
write_juice() for general cases.
- Argument
as_matrix in function crosstable() alternating matrix or data.frame as output.
- New arguments
suffix and in_header for the function count_taxa().
Bug Fixes
- Function
taxa2samples() was not properly working when taxlist had taxon concepts without level information.
vegtable 0.1.4 (2019-01-22)
New Features
- New data set
aspect_conv.
- New function
taxa2samples() for changing record names by their respective accepted names.
- Function
count_taxa() implemented for vegtable objects.
Improvements
- Updated data set
Kenya_veg Including hierarchical ranks.
Bugs
- Function
cross2db was not working properly for tables with only one column
vegtable 0.1.3 (2018-06-29)
Improvements
- A method for
numeric values in function transform().
vegtable 0.1.2 (2018-05-10)
New Features
- File inst/ChangeLog replaced by NEWS.md.
- Method
match_names() for vegtable objects.
- New method
layers2samples().
- New method
add_releves(), adding releves from data frames into vegtable objects.
Improvements
- No column
LayerID in prototype for vegtable objects.
NA values are allowed for layers in slot samples.- Layers are not any more restricted to single plots.
- Orphaned entries in slot
layers will be deleted by function clean().
- Argument
match_header included in function veg_relation().
- Validity check is not accepting
NA values in TaxonUsageID at slot samples.
- Validity check tests also the values of relations matching header with the respective relation.
vegtable 0.1.1 (2018-02-08)
New Features
- A method for function
aggregate.
- Slot
layers added to vegtable objects.
Improvements
- Method
subset working similarly to taxlist::subset.
- Function
clean does not modify slot species.
- Function
crosstable access also to taxon traits.
- New argument
use_nas for function crosstable.
vegtable 0.1.0 (2017-08-08)
New Features