NEWS.md

In tpq/balance: Visualize Balances of Compositional Data

balance 0.2.5

• Remove dependencies
  • Migrate data from robCompositions to remove dependency
  • Remove ggthemes dependency

balance 0.2.4

• Update vlr methods
  • Add pairwise argument to ssBetween and ssWithin
  • Add new tests for ss method

balance 0.2.3

• Update sbp methods
  • Replace sbp.fromPDBA with tree that clusters (1 - theta)
  • Replace sbp.fromADBA with sbp.fromPropd wrapper
  • Deprecate all ldaRule commands
• Add vlr methods
  • Add ssBetween to calculate between-group log-ratio sums of squares
  • Add ssWithin to calculate within-group log-ratio sums of squares

balance 0.2.2

• Update sbp methods
  • New ldaRule calculates BETWEEN / WITHIN variance pair-wise
  • New sbp.fromPDBA returns a rooted discriminative tree
  • New sbp.fromADBA returns a distal discriminative tree
  • Suppress messages for propr::propd calls
  • Revise some documentation

balance 0.2.1

• Update balance.plot method
  • Now plot boxplot OR points (not both)
  • Fix length of range line

balance 0.2.0

• Update pba methods
  • New argument how supports any SBP routine
  • Add new tests for pba.predict method

balance 0.1.9

• Update balance methods
  • Check for equivalent names in balance.fromSBP call
  • No longer export balance.fromContrast function
  • Add sbp.fromHclust test

balance 0.1.8

• Add sbp methods
  • New sbp.subset returns named ternary or ratio balances
  • New sbp.fromRandom returns random binary tree
  • New sbp.fromABA returns modified PBA tree
  • New sbp.fromPropdreturns theta tree

balance 0.1.7

• Update documentation
  • Place all pba functions within ?pba help file
  • Make pba method help more accessible

balance 0.1.6

• Update balance methods
  • balance now returns an S4 object called bplot
  • bplot has [[ method for backwards compatibility
  • balance.fromContrast now 2x faster
• Update documentation
  • An example is now provided for each function

balance 0.1.5

• Update pba methods
  • pba.plot no longer prints variance when y is provided
  • vlr now uses less peak RAM

balance 0.1.4

• Extend zero handling
  • vlr will now replace 0s with next smallest value
  • balance.fromSBP will now replace 0s with next smallest value
• Extend pba methods
  • New pba.show method shows object structure
  • New pba.plot method plots balances in 2D

balance 0.1.3

• Add functions to perform a principal balance analysis
  • New vlr function calculates log-ratio variance using matrix algebra
  • New sbp.fromPBA function builds an SBP of principal balances
  • New pba object
    • New pba function constructs pba object
    • New predict method deploys pba model

balance 0.1.2

• Add functions to create an SBP matrix
  • New sbp.fromHclust creates SBP matrix from hclust object
  • New sbp.sort sorts an SBP matrix predictably

balance 0.1.1

• Modify balance.plot function
  • All points now overlap with their boxplot when boxplot.split = TRUE
• Revise vignette and README
  • Use balance.plot() instead of balance()

balance 0.1.0

• Modify function names
  • Rename balance() to balance.plot()
  • Create balance() wrapper for backwards compatibility
  • Rename balance.compute() to balance.fromContrast()
  • Rename balances() to balance.fromSBP()

balance 0.0.9

• Add CITATION to package and DESCRIPTION

balance 0.0.8

• Update balance method
  • Remove size.line argument and do not set size for !weigh.var

balance 0.0.7

• Update balance method
  • Fix bug caused by using n.group in presence of unique rownames

balance 0.0.6

• Update balance method
  • Use weigh.var argument to weigh line width by explained variance
  • Use size.line argument to alter line width factor

balance 0.0.5

• Update balance method
  • Compute balances using exp(mean(log(x))) to prevent overflow
  • Remove "linetype" aesthetic from partition figure

balance 0.0.4

• Update balance method
  • Re-write robCompositions::balances call as balances function
  • Re-write reshape2::melt call as wide2long function

balance 0.0.3

• Update balance method
  • Coerce input as data.frame to prevent errors

balance 0.0.2

• Update balance method
  • Fix the automatic sorting of serial binary partition matrix
  • Add test that sorting does not alter results

balance 0.0.1

• Create package skeleton
  • Add balance.combine function to merge figures
  • Add balance function to visualize balances
  • Complete package DESCRIPTION
  • Create README

tpq/balance documentation built on Aug. 6, 2021, 10:45 p.m.