Changes in version 3.2-0 (2024-12-12) o Efficiency improvements for bias.test.custom() Changes in version 3.1-2 (2024-11-18) o Correct permutations in bias.test.custom() to occur independently over random effects belonging to different variance components. Not yet enabled for "GP" or "rGP" persistence. Changes in version 3.1-1 (2024-10-15) o Correct data format check in GPvam.R o Add bias.test.custom() function Changes in version 3.0-9 (2023-01-07) o Changes to DESCRIPTION file. Changes in version 3.0-8 (2022-09-03) o Changes to Matrix() references to conform with Matrix package changes. Changes in version 3.0-7 (2021-01-07) o Changes to Matrix() references to conform with Matrix package changes. Changes in version 3.0-6 o Enable REML estimation for persistence = CP, VP, or ZP. Changes in version 3.0-5 (2018-04-18) o Minor updates to package structure to conform with new CRAN requirements. Changes in version 3.0-4 (2017-03-15) o Minor updates to package structure to conform with new CRAN requirements related to compiled C++ code. Changes in version 3.0-3 (2015-07-20) o Minor updates to package structure to conform with new CRAN requirements. Changes in version 3.0-2 (2014-06-23) o Changed method used to calculate rank of X matrix to avoid conversion to a dense matrix. o Added information to documentation about program run time. o Added data set GPvam.benchmark, which contains program run time and memory requirements for various simulated data sets. o Changed default options to Hessian=FALSE and verbose=TRUE. Changes in version 3.0-1 (2014-01-31) o Corrected use of 'break' reserved word Changes in version 3.0-0 (2014-01-31) o The program runs much faster now with student.side="R" due to the use of Rcpp and RcppArmadillo and a re-ordered nested loop. o Added references to recently accepted papers in help files. Changes in version 2.0-0 (2012-07-06) o Improved scalability of program when student.side="R". For smaller data sets, certain operations work faster with dense matrices, but these matrices grow in size with the data. For large data sets, we now rely exclusively on sparse matrices. o Added support for the variable persistence (VP) model, including the ability to estimate the persistence parameters. As special cases, the complete and zero persistence models have also been included. Changes in version 1.1-0 (2012-04-04) o Corrected issue where program crashed when updated covariance matrix was not symmetric due to rounding (i.e. transposed compoenents may have differered by 1E-14 or so). o Added caterpillar plots to plot() output. Changes in version 1.0-0 (2012-02-19) o First public release.