Changelog

Source: NEWS.md

goldfish 1.6.10

  • Solves invalid URL link for the MIT Social Evolution dataset.

goldfish 1.6.9

  • Solving missing package anchors in the documentation.
  • Update deprecated functions in the vignettes from manynet.
  • Solve issue on Makevars.in file that produced a note when check as CRAN.

goldfish 1.6.82024-04-11

  • checkEvents() method addresses S3 generic/method consistency.
  • Solves invalid URL link in the bibliography.

goldfish 1.6.7

  • Debug and update yaml workflow files for GitHub Actions.
  • Solve note mismatches generic/method consistency

goldfish 1.6.6

  • Debugging and extend documentation for GatherPreprocessing().
  • Fix note from CRAN checks.
  • Debug issue when using a preprocess init object in estimate().
  • Debug issue with opportunity list in estimate() for DyNAM models.
  • Fix error in printing output from estimate() when using a parameter is fixed to a value.

goldfish 1.6.5

  • Solves startTime and endTime bug on DyNAM and REM models preprocessing.
  • Export GatherPreprocessing(). Experimental functionality.
  • Clean unnecessary functions imports.
  • Solves aes_string() deprecation.
  • Solves issue on C++ engine on DyNAM-rate.
  • Enforcing an 80-character line length on C++ code.
  • Comply with code style.
  • Changes that reduce execution time in the R estimation engine.

goldfish 1.6.42022-08-24

  • Change mentioning of .GlobalEnv and drop goldfishObjects().

goldfish 1.6.3

New features

  • Add DyNAM-i vignette.
  • Implement method vcov(), now is possible to use stats::confint() to obtain confidence interval for parameters estimates under asymptotic normality, and also get them from a tidy() call.

Breaking changes

  • silent parameter replace by progress. progress and verbose can be set with global options with the same name.

Minor improvements and fixes

  • Reimplement method logLik(), now is possible to use AIC() and BIC() from stats package and make likelihood ratio test of nested models using lmtest::lrtest().
  • Improve documentation of define functions, linkEvents() and print methods. The reserved names and expected variables are explained.
  • Drop fig.retina from figures in vignettes and keeps default size.
  • Update vignette("goldfishEffects") documentation for closure effects.
  • Window effects doesn’t create new object on the global environment.
  • Add references in description.
  • Fix bug composition change on estimation routines.
  • Includes environment argument on estimation routines.

goldfish 1.6.2

  • Fix additional URL on Vignette “How to start”.

goldfish 1.6.1

  • Fix URLs.
  • Estimate examples now use the C engine.

goldfish 1.6.0

  • Cleaning submission to CRAN.

goldfish 1.5.3

  • Effects documentation migrated to a vignette.
  • Precompile vignettes with long-run time for compilation.

goldfish 1.5.2

  • Fix minor bugs on opportunityList
  • New effect ego alter interaction egoAlterInt(list(egoAttr, alterAttr))
  • Cleaning vignettes and changing networks visualization to use migraph package

Breaking changes

  • Closure effects renaming.

    clSender(net) -> commonSender(net)
clReceiver(net) -> commonReceiver(net)
mixedClSender(list(net1, net2)) -> mixedCommonSender(list(net1, net2))
mixedClReceiver(list(net1, net2)) -> mixedCommonReceiver(list(net1, net2))

  • Updated examine.outliers() and examine.changepoints() to plot more informative plots (with ggplot2)

    • These functions no longer print to the console

  • Added vignette teaching2.Rmd that also indicates these extensions

  • Added vignette teaching1.Rmd with the “How to start”

goldfish 1.5.1

  • Re #3 added broom-related functions tidy() and glance()
  • Updated examine.outliers() and examine.changepoints() to plot more informative plots (with ggplot2)
    • These functions no longer print to the console
  • Added vignette teaching2.Rmd that also indicates these extensions
  • Added vignette teaching1.Rmd with the “How to start”

goldfish 1.5.0

New features

  • New DyNAM-i model available to model face-to-face interaction data, collected through video or RFID badges.

  • Functions to transform interaction data into DyNAM-compatible objects

    defineGroups_interaction(interactions_data, actors, seed.randomization)

  • Estimation functions for the joining and leaving rates of a DyNAM-i model

    estimate(
  dependent.events_interactions ~  1 + intercept(network_interactions, joining = 1) +
                                ego(actors$age,joining = 1, subType = "centered") +
                               ego(actors$age,joining = -1, subType = "centered"),
  model = "DyNAMi", subModel = "rate")

  • Estimation functions for the choice part of a DyNAM-i model

    estimate(
  dependent.events_interactions ~ diff(actors$age,subType="averaged_sum") ,
  model = "DyNAMi", subModel = "choice", 
  estimationInit = list(opportunitiesList = opportunities))

  • New closure effects for model = "DyNAM" with subModel = "choice" and model = "REM". Documentation is updated accordingly.

    cycle(bilatnet)
clSender(bilatnet)
clReceiver(bilatnet)
mixedCycle(list(bilatnet, contignet))
mixedClSender(list(bilatnet, contignet))
mixedClReceiver(list(bilatnet, contignet))

Minor improvements and fixes

  • Minor bugs in parsing and printing solved.
  • Solves some warnings regarding S3 generic/method consistency.
  • Solves no visible binding for global variables.
  • Documentation improvements creating new documentation pages aggregating similar functions on print-method and update-method.

Breaking changes

  • tertius_diff() and node_trans() are changed to tertiusDiff() and nodeTrans() complaining with naming convention.

goldfish 1.4.3

New features

  • mixedTrans() effect is created. It requires the definition of two networks to compute the number of two paths between nodes.

    mixedTrans(list(bilatnet, contignet))

Minor improvements and fixes

  • estimate() no longer give warnings in R 4.0.0.
  • Classes and types checkings are revisited and extended.
  • linkEvents() is refactored as a S3 method.
  • New print or summary methods for goldfish objects are developed.
  • head() and tail() methods for nodes.goldfish, network.goldfish and dependent.goldfish are available.

goldfish 1.3.2

New features

  • tertius() and tertius_diff() effects are created. It requires the definition of a network and an attribute.

    tertius_diff(bilatnet, states$gdp)
tertius(bilatnet, states$gdp)

goldfish 1.3.1

New features

  • estimate() now estimation routine in C for model = "DyNAM" and subModel = "choice_coordination".

goldfish 1.3.0

New features

  • estimate() parameter engine through estimationInit argument control the estimation routine used.

    mod01 <- estimate(callsDependent ~ inertia + recip + trans,
                  model = "DyNAM", subModel = "choice",
                  estimationInit = list(engine = "gather_compute"))

  • estimate() now estimation routine in C except for model = "DyNAM" and subModel = "choice_coordination".

  • New effects definition for model = "DyNAM" and subModel = "rate".

Minor improvements and fixes

  • inertia fixed bug when weighted = TRUE.

Breaking changes

  • modelType argument in estimate() have been deprecated in favor of model and submodel.

Internal changes

  • New implementation of effects to improve preprocessing time in the initialization of the statistical matrices and the reintroduction of a cache object for complex structural network effects.

Minor improvements and fixes

goldfish 1.2.1

  • Introduce a new efficient estimation routine.