DMRnet 0.4.0

Variable selection algorithm var_sel added
GLAMER implemented as a net version respective to its \(\tau\) parameter issue #57
Features package load message with citation info
Fixing a problem with zero-length arrow in CV plots resulting from sd=0 (problem still remaining in issue #39 after the 0.3.2.9002 fix)
Citation update
Hierarchical clustering based on segmentation of 1D points with hclust1d package for PDMR and GLAMER

DMRnet 0.3.4

Updating documentation to reflect that for inference the matrix must be provided without the intercept column
Fixing incorrect inference for columns not in first-factors-then-numerics sequence
Candidate fix for warnings related to issue #33
Setting a default nlambda value to 100 in cv.DMRnet() (issue #41)
Fixing problems when few or no models are available in cross validation
Fixing problems when few or no models are available after grpreg (issue #39)
Refactoring the code to distribute the no-model fixes from gaussian DMRnet into binomial family DMRnet and both SOSnets and GLAMERs
Fixing a few other minor long-standing issues in GIC-indexed cross validation
Fixing df.1se in GIC-indexed cross validation for binomial GLAMER
Fixing incorrect loglik calculation for the first (largest) model in binomial family, for both GLAMER (-Inf) and DMRnet (incorrect)

Improved readability of a getting-started vignette
Fixed a bug in model-indexed cross validation related to folds with different model sizes
Added df.1se to GIC-indexed cross validation
Improved CV plots with df.1se model
Improved readability of README on CRAN (issue #32)
Welcome message on package load added

GLAMER (Group LAsso MERger) algorithm added
Rebuild of the existing cross validation routine (models indexed by model dimension)
New cross validation routine added (models indexed by GIC) and made a new default
Handling of mismatched factor levels restructured

Adding pivots in SOSnet for gaussian families
Adding a try-catch clause to recalculate QR decomposition for pivoted columns within rank in case of failure
Adding the regularization in gaussian family in DMR direct calls and calls via DMRnet
fixing NA values resulting in attempting non-penalized regression in case of non-full rank design matrices

Fixing how the parameters get passed in plot family of functions
Returning only non-zero coefficients in coef
Fixing DRMnet and cross validation in handling data with a single two-factor column
Fixing negative Wald statistics in binomial case
Workaround in GLAMER for cases of grpreg not observing a group constraint