NEWS.md

In tanyalrogers/GPEDM: Gaussian Process regression for Empirical Dynamic Modeling

GPEDM 0.0.0.9010

• Allow multiple b values when fitting fisheries models.
• Add alternate R2 values for hier models.
• All linprior option to fitGP.
• Bug fixes in fisheries model.
• Add 2 vignettes (extended introduction, practical).

GPEDM 0.0.0.9009

• Add exclradius to predict.GP options.

GPEDM 0.0.0.9008

• Add fitGP_fish, predict_iter, and fisheries vignette.
• Add RickerHarvest dataset for fitGP_fish demo.
• Fix problem with extrap feature in getconditionals.
• Fix typos in documentation.

GPEDM 0.0.0.9007

• Enable use of update.default with fitGP by storing function call in output.
• Fix bug so that parameter values from prior model can be used in initpars. Initial values for ve and sigma2 previously had to be constrained to (0,1), but can now be in (0,5).
• Create predict_seq function.
• Add fixedpars option to fix phi, ve, sigma2
• Add returnGPgrad option to predict.GP

GPEDM 0.0.0.9006

• Added 2 new vignettes, 2 empirical datasets, and posdef function to find nearest rhomatrix that is positive definite.
• Covariance matrix is sometimes non-symmetric due to numerical issues. Force to be symmetric by averaging: (C+t(C))/2.

GPEDM 0.0.0.9005

• Fixed bugs discovered by Vadim, related to prediction with newdata. This now works with (1) rhomatrix, (2) a single prediction row, (3) column numbers specified instead of names.

GPEDM 0.0.0.9004

• Added predictmethod="lto" option to predict.GP, which leaves out points with the same time index (relevant for multi-population models).

GPEDM 0.0.0.9003

• Added getrhomatrix function, and rhomatrix argument to fitGP. This allows you to specify a fixed pairwise rho matrix for a hierarchical model.
• Added vignette for VS-EDM and new example dataset.

GPEDM 0.0.0.9002

• First logged development version.
• VS-EDM with augmentation added but not fully tested.

tanyalrogers/GPEDM documentation built on June 1, 2025, 8:10 p.m.