nexus 0.4.0
New classes and methods
- Add
ReferenceGroups, GroupedComposition
and GroupedLogRatio classes to represent grouped data.
- Add
group(), ungroup(),
group_levels(), group_names(),
group_indices(), group_rows(),
group_length(), group_size(),
group_extract(), group_split() and
is_grouped() to work with grouped data.
- Add
transform_lr(), transform_clr(),
transform_alr(), transform_ilr(),
transform_plr() and transform_inverse()
methods for GroupedComposition and
GroupedLogRatio objects.
- Add
is_composition(), is_logratio() and
is_grouped() to check if an object is from a specific
class.
- Add
pairs() to display a matrix of ternary plots.
Enhancements
as_composition() gained a new autodetect
argument to enable/disable automatic detection of numeric
variables.
Breaking changes
- Redesign the internal mechanism for grouping data.
hist() now produces a single histogram.plot(<LogRatio>) produces a scatter plot instead
of a density plot.- Rename the
plot() method for the
CompositionMatrix class to pairs().
nexus 0.3.0
New classes and methods
- Add transformation methods for
LogRatio objects (clr
<-> alr, clr -> ilr, alr -> ilr).
- Add
condense() to compute compositional mean of data
subsets.
- Add
pip() to compute proportionality index of
parts.
- Add
rbind() method for CompositionMatrix
objects.
- Add
show() methods for LogRatio
objects.
- Add
is_element_major(),
is_element_minor(), is_element_trace() and
is_oxide() methods for CompositionMatrix
objects.
- Add
variance() and variance_total() to
compute (total) variance.
Enhancements
- Add example datasets.
- Improve bar chart rendering.
Bugfixes & changes
- Fix
pca() for LogRatio objects (default
arguments were not passed to the internal method).
Internals
- Store groups as
factor instead of
character.
Breaking changes
[ always returns a CompositionMatrix
object by default, even if only one row/column is accessed.- Remove
samples slot in all classes.
- Remove
as_features().
- Remove
metrix_var() and metric_sd().
- Remove the
base argument of
transform_ilr().
- Rename
get_totals() and set_totals() to
totals().
- Rename
get_groups() and get_groups() to
groups().
- Rename
outliers() to detect_outlier() and
redefine methods.
- Rewrite
plot() method for OutlierIndex
object.
nexus 0.2.0
New classes and methods
- Add
hist() methods to plot ILR histograms.
- Add
quantile() methods for compositional data
matrix.
- Add
split() methods to divide into groups.
Enhancements
transform_ilr() gained a new argument allowing the
specify the base of the transformation.barplot() gained a new argument to display a
legend.
Internals
- List dimensio in
Depends.
nexus 0.1.0