## **BDgraph** NEWS ### **BDgraph** Version 2.72 * Function `predict.bdgraph()` is added to the package. * Function `posterior.predict()` is added to the package. * In functions `bdgraph()`, `bdgraph.mpl()`, and `bdgraph.dw()`, option `g.prior` is changed from `0.5` to `0.2`. ### **BDgraph** Version 2.71 * Function `auc()` is added to the package. * In function `plotroc()`, option `calibrate` is added. * Data set `churn` is removed. ### **BDgraph** Version 2.70 * Bug fixed for `plotroc()` function. * In function `plotroc()`, options `color`, `typeline`, `size`, `xlab`, and `ylab`, and some more options are added. ### **BDgraph** Version 2.69 * In function `bdgraph.sim()`, options `type="t"` and `type="alternative-t"` are added. * In function `bdgraph.sim()`, option `nu` is added for the cases `type="t"` and `type="alternative-t"`. * Bug fixed for `compare()` function. * In function `compare()`, option `est` is replaced. * In function `plotroc()`, option `est` is replaced. ### **BDgraph** Version 2.68 * In functions `bdgraph()`, `bdgraph.mpl()`, and `bdgraph.dw()`, option `verbose` is added. * In function `plotcoda()`, option `verbose` is added. * A new file is added to the vignette of package. * Bug fixed for `bdgraph()` function with option `method = gcgm` and `algorithm = rj-dmh`. ### **BDgraph** Version 2.65 * Function `bdgraph.dw()` is added to the package. * Function `bdw.reg()` is added to the package. * In functions `graph.sim()` and `bdgraph.sim()`, option `graph = "smallworld"` is added. * In functions `plot.graph()` and `plot.bdgraph()`, options `layout`, `vertex.size`, `vertex.color`, and `vertex.label.dist` are added. * In function `bdgraph.sim()`, options `range.mu` and `range.dispersion` are added. ### **BDgraph** Version 2.64 * Function `roc()` is added to the package. * Function `conf.mat()` is added to the package. * Function `conf.mat.plot()` is added to the package. * Function `sparsity()` is added to the package. * Functions `ddweibull()`, `pdweibull()`, `qdweibull()`, `rdweibull()` are added to the package. ### **BDgraph** Version 2.63 * In functions `bdgraph()`, `bdgraph.mpl()`, and `bdgraph.ts()`, option `print` is removed. * In function `bdgraph.sim()`, option `type="dw"` is added. * In function `bdgraph.sim()`, option `type="discrete"` is changed to `type="count"`. * Bug fixed for `gnorm()` function. * `README` is added to the package. ### **BDgraph** Version 2.62 * Bug fixed related to the class function; class(.) == * ### **BDgraph** Version 2.61 * Bug fixed related to the C stack by Fortran functions. * Function `bf()` is added to the package. * Function `adj2link()` is added to the package. * Function `link2adj()` is added to the package. * Function `bdgraph.ts()` is removed. ### **BDgraph** Version 2.60 * Function `precision()` is added to the package. * Function `covariance()` is added to the package. ### **BDgraph** Version 2.58 * Bug fixed for `compare()` function. * Function `get_graph()` is added to the package and used inside function `compare()`. * Functions `get_g_prior()`, `get_g_start()`, `get_S_n_p()`, `get_K_start()`, and `get_cores()` are added to the package and used inside function `bdgraph()`. ### **BDgraph** Version 2.57 * In function `compare()`, option `est4` is added. ### **BDgraph** Version 2.56 * In functions `rgwish()`, `rgcwish()` and `gnorm()`, option `adj.g` is changed to `adj`. * In function `compare()`, option `sim.obj` is changed to `target`. * In function `compare()`, option `bdgraph.obj` is changed to `est`. * In function `compare()`, option `bdgraph.obj2` is changed to `est2`. * In function `compare()`, option `bdgraph.obj3` is changed to `est3`. * In function `plotroc()`, option `sim.obj` is changed to `target`. * In function `plotroc()`, option `bdgraph.obj` is changed to `est`. * In function `plotroc()`, option `bdgraph.obj2` is changed to `est2`. * In function `plotroc()`, option `bdgraph.obj3` is changed to `est3`. * In function `plotroc()`, option `bdgraph.obj4` is changed to `est4`. * Bug fixed for `bdgraph()` function with option `method = gcgm`. * Functions `summary.bdgraph`, `plot.bdgraph`, and `print.bdgraph` are modified. ### **BDgraph** Version 2.53 * Files `configure` and `configure.ac` are removed and files `Makevars` and `Makevars.win` are modified accordingly. * In functions `bdgraph()`, `bdgraph.mpl()`, and `bdgraph.ts()`, option `save.all` is changed to `save`. * In functions `bdgraph()` and `bdgraph.mpl()`, option `multi.update` is changed to `jump`. * In functions `bdgraph()` and `bdgraph.ts()`, option `prior.df` is changed to `df.prior`. * In function `pgraph()`, option `adj_g` is changed to `adj`. ### **BDgraph** Version 2.52 * Option `threshold` is added to function `rgwish()`. * Option `threshold` is added to function `bdgraph()`. * Option `not.cont` is added to function `bdgraph()`. * In function `compare()`, option `colnames` is changed to `main`. * In functions `bdgraph()` and `bdgraph.mpl()`, option `g.space` is removed. Instead user can use option `g.prior`. * Bug fixed for `bdgraph.ts()` function. * Data set `churn` is added. ### **BDgraph** Version 2.51 * Bug fixed In functions `rgwish()` and `rcgwish()`. * vignette is added to the package. ### **BDgraph** Version 2.47 * Function `graph.sim` is added to the package. * Function `plot.graph` is added to the package. ### **BDgraph** Version 2.46 * Function `rmvnorm` is added to the package. ### **BDgraph** Version 2.44 * Functions `bdgraph.ts`, `rcwish`, and `rcgwish` are added to the package. ### **BDgraph** Version 2.42 * Function `local_rates_ggm_mpl` in cpp is added for bdgraph.mpl function. * `configure` and `configure.ac` are added to the package for Makevars file. * Functions `bdgraph.ts`, `rcwish`, and `rcgwish` are removed from the package. ### **BDgraph** Version 2.41 * Option `dgm-binary` is added to function `bdgraph()` which is for running Hill-Climbing algorihtm for binary data. * `configure` and `configure.ac` are added to configure checks of C++ codes. ### **BDgraph** Version 2.38 * Function `bdgraph.mpl()` is added to the package, which is based on Marginal Pseudo-Likelihood estimation. * In the algorithm `gcgm`, step `copula` are implimented in parallel using OpenMP in C++. * Function `bdgraph.ts` is implimented in parallel using OpenMP in C++. * New reference related to the ratio of normalizing constant is added to manual. ### **BDgraph** Version 2.40 * Option `g.prior` is added to function `bdgraph()`, for prior distribution of the graph. * Option `cores` is added to function `bdgraph()`, for determining the number of cores to use for parallel execution. * Function `transfer()` is added to the package. ### **BDgraph** Version 2.36 * The BDMCMC algorithms are implimented in parallel using OpenMP in C++. ### **BDgraph** Version 2.28 * The Title in Description is changed. * Functions `bdgraph.ts()`, `rgcwish()`, and `rcwish()` are added to the package. ### **BDgraph** Version 2.24 * Function `phat()` is changed to `plinks()`. * Function `prob()` is changed to `pgraph()`. * Function `log_Ig()` is changed to `gnorm()`. ### **BDgraph** Version 2.23 * Function `I.g()` is chenged to `log_Ig()` and it is implemented in C++. ### **BDgraph** Version 2.20 * Reversible jump MCMC algorithm is added to the `bdgraph()` fonction. ### **BDgraph** Version 2.19 * The Title in Description is changed. * Function `I.g` is added.