Probabilistic dependency modeling toolkit.
CHANGES IN VERSION 0.8.09 (2012-05-25)
o added treatment of one-dimensional data in pfa
CHANGES IN VERSION 0.8.08 (2012-05-24)
o changed argument log -> logarithm in determinant function
CHANGES IN VERSION 0.8.07 (2011-10-14)
o removed compiler and methods from dependencies o packageStartupMessage in firstlib.R
CHANGES IN VERSION 0.8.06 (2011-07-27)
o added compiler package to dependencies o option for exponential prior on W added in pfa
CHANGES IN VERSION 0.8.05 (2011-07-15)
o optimize.parameters.R sometimes got stuck due to very mild convergence criterion bug. Now corrected.
CHANGES IN VERSION 0.8.04 (2011-07-11)
o added pfa.log.likelihood
CHANGES IN VERSION 0.8.03 (2011-04-13)
o plotVar fixed (screen removed)
CHANGES IN VERSION 0.8.01 (2011-03-28)
o bug with matched = TRUE, Nm.Wx.Wy.sigma = 0, with diagonal covariances and identical isotropic covariances; in W.simcca.EM function the W$total name was missing, causing failure. Corrected.
CHANGES IN VERSION 0.7.07 (2011-02-25)
o package was accepted to CRAN and passed all tests; added links to vignette and website o tests/ directory removed, too time-consuming.
CHANGES IN VERSION 0.7.04 (2011-02-21)
o covLimit parameter name was changed into epsilon
o convergence is now checked across multiple consecutive steps to improve stability of the results: the par.change option was removed, and convergence.steps option added in fit.dependency.model/optimize.parameters
o added intercept calculation in check.data.R
o marginalCovariances definition was missing in some optimize.parameters calls in fit.dependency.model.R; corrected.
CHANGES IN VERSION 0.7.01 (2011-02-13)
o updated vignette and man pages. ready for initial submission to CRAN.
CHANGES IN VERSION 0.4.20 (2011-02-13)
o added tests/depmod.simcca.R for case Wx = Wy; W free still some unoptimal convergence with full covariances
CHANGES IN VERSIOn 0.4.19 (2011-02-13)
o added tests/depmod.R for case Wx != Wy; W free still some unoptimal convergence with full covariances
CHANGES IN VERSIOn 0.4.18 (2011-02-13)
o added marginalCovariances isotropic, identical isotropic, diagonal in fit.dependency.model and tests/psimcca.nnW.R. Still needs simple speedups and more robustness but tests are ok.
CHANGES IN VERSIOn 0.4.17 (2011-02-13)
o added tests/pcca.nnW.R for case Wx != Wy; W>=0
CHANGES IN VERSIOn 0.4.15 (2011-02-12)
o added tests/psimcca.nnW.R for case Wx = Wy; W>=0 o tidied up the code; combined some files in R directory o added toy data generation function generate.toydata
CHANGES IN VERSIOn 0.4.09 (2011-02-02)
o in calculate.ppca removed X field from W output in Y = NULL i.e. one data case (now only W$total available)
CHANGES IN VERSIOn 0.4.08 (2011-01-25)
o The latent variable is calculated as dependency model is calculated. getZ method is used to retrieve the latent variable
o All a priori information is given as priors argument to fit.dependency.model. H is changed to priors$Nm.wxwy.mean and sigmas to priors$Nm.wxwy.sigma.
CHANGES IN VERSION 0.4.07 (2011-01-17)
o W.effects and z.effects removed from the package
CHANGES IN VERSION 0.4.06 (2011-01-17)
o ppca method works with non-mathced data
CHANGES IN VERSION 0.4.05 (2011-01-17)
o pfa method works with non-mathced data
CHANGES IN VERSION 0.4.04 (2011-01-14)
o 'title' argument added to plot.DependencyModel
CHANGES IN VERSION 0.4.02 (2011-01-13)
o first functional version
CHANGES IN VERSION 0.3.2 (2010-06-09)
SIGNIFICANT USER-VISIBLE CHANGES o combined pint and drCCA modules into a single package
DOCUMENTATION o collected all modules (pint, drCCA, MultiWayCCA) into a single vignette