DMRnet 0.4.1

• Fixed invalid lambda.1se computation ((issue #69))
• Changed the presentation of CV plots to reflect that fix
• Updated documentation and the vignette

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

• PDMR added

DMRnet 0.3.3

• 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)

DMRnet 0.3.2

• 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

DMRnet 0.3.1

Major changes

• 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

Stability improvements

• 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

Other improvements

• 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

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