Changelog • dsem

dsem 1.7.0

CRAN release: 2025-09-16

Add option to turn off useless NA/NaN function evaluation function evaluations from nlminb (enabled by default, but overriden in dsem_control)
Use Matrix::bandSparse to simplify logic in make_matrices
Add experimental function partition_variance
Extend total_effect to compute result for either pulse or press experiment
Adding exploratory option gmrf_parameterization = "conditional_krig" that excludes family = "fixed" variables from the GMRF density calculation while still conditioning upon their value(s)

CRAN release: 2025-03-22

Export and document make_matrices
Remove ggm from Imports (because it Imports graph which is not on CRAN) and instead define a locally copy of relevant functions. Also adding Giovanni M. Marchetti (the maintainer of ggm as contributor in DESCRIPTION)
Update test_dsep(.) to allow options for imputing missing data prior to test, and using default impute_data = "by_test" based on explorations to date
Add example for total_effect
Adding “model structura” vignette and re-organizing pkgdown page

CRAN release: 2025-02-13

Add option to simulate data with or without missingness pattern of original data
Change test_dsep(.) to have option to impute missing data, and changing that to be the default behavior

CRAN release: 2025-02-13

Fix bug when adding missing variances (PR 36)
Fix bug in detecting high ratio of variances (issue 35)
Added test_dsep(.) to calculate a p-value for the probability that a a data set arose from the specified model (highly experimental)
Added total_effect(.) to calculate total effects
Fixed bug where dsem crashed when quiet = FALSE and running without data e.g., as qualitative network model
Added vignette showing how to approximate diffusive movement using DSEM with paths among adjacent strata

CRAN release: 2025-02-02

Edits to allow DSEM to run when all path coefficients are fixed (contributed by Maurice Goodman)

CRAN release: 2025-01-13

Adding option for lower and upper bounds
Adding stepwise_selection for automated stepwise model selection
Adding plot option to use ggraph as alternative to previous igraph option
Adding convert_equations to extend sem::specifyEquations and simplify specification for large models
Adding argument prior_negloglike as interface to specify Bayesian priors and/or likelihood penalties in dsem
Adding dsemRTMB using RTMB as interchangeable alternative to dsem using TMB

CRAN release: 2024-07-22

Adding option to specify constant marginal variance, as alternative to existing calculation which results in a constant conditional variance but a changing marginal variance along the causal graph

CRAN release: 2024-04-02

removing checkDepPackageVersion(dep_pkg="Matrix", this_pkg="TMB") from .onLoad() as requested by K. Kristensen

CRAN release: 2024-03-31

Adding option to specify covariance via argument covs
Adding options to specify gmrf_parameterization=“projection”
Adding vigette outlining how to fit dynamic factor analysis
Fix bug arising when tsdata had two or more columns sharing a single variable name
Adding make_dfa helper function
Updating bering_sea dataset to include extra year of cold-pool, and changing vignette to match the published specification and results
Updating the lag indexing for the Klein-I model in the vignette to use positive values for lags, and updating saved MCMC results to match that corrected specification

CRAN release: 2024-02-17

CRAN release: 2024-02-02

Eliminate eval usage
Add codecov Action and badge
Change default behavior so that all variables in tsdata have a standard deviation by default

CRAN release: 2024-01-18

CRAN release: 2023-12-08