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NEWS.md

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hdme 0.6.0

  • Changed ggplot code to avoid using deprecated functions.
  • Reduced test time by changing tests.dec
  • Fixed a bug in corrected_lasso and cv_corrected lasso causing the algorithm to not converge, without issuing a warning. Thanks to Yuxiao Ruoyao for discovering the error (issue 47).

hdme 0.5.1

  • Colorblind friendly plots in vignette. Thanks to Andre Cruz for suggesting.
  • Removed C++11 flags from Makevars and Makevars.win.

hdme 0.5.0

  • Fixed bug in stopping condition for projected gradient descent. Thanks to Michael Pollmann for discovering this.
  • Fixed numerical overflow issue which happened for corrected lasso with Poisson regression.

hdme 0.4.0

  • Fixes a bug in corrected_lasso() with the family = "poisson" option. Thanks to Huang Jun for discovering this.
  • Corrected a logical error in the examples, in which the variance of the measurement errors was supplied as the standard error.

hdme 0.3.4

  • Changed to Authors(at)R notation in DESCRIPTION.

hdme 0.3.3

  • Package 'flare' removed from suggested dependencies.

hdme 0.3.2

  • Changed used of coef function from glmnet, due to a breaking change in glmnet.

hdme 0.3.1.9000

  • New function cv_gds which computes cross-validated generalized Dantzig selector.

hdme 0.3.1

  • Added case weighting to gds and gmus.

hdme 0.3.0

  • This release contains all changes since 0.2.3, as listed under the headings below.

hdme 0.2.3.9001

S3 methods

  • Added coef methods coef.corrected_lasso, coef.gds, coef.gmu_lasso, and coef.gmus.
  • Added print methods print.corrected_lasso, print.cv_corrected_lasso, print.gds, print.gmu_lasso, and print.gmus.
  • Improved plot.corrected_lasso to also handle the case of a single regularization parameter.

Dependencies

  • Figured out how to install Rglpk on travis CI, so now this package is back in Imports, and lpSolveAPI is no longer used.

hdme 0.2.3.9000

  • It turns out that travis CI is not able to install Rglpk. Hence, for the development version Rglpk is back in Suggests, together with lpSolveAPI.

hdme 0.2.3

  • Added Rglpk back to Imports and removed lpSolveAPI, as the latest version of Rglpk passes all tests on CRAN, including osX.
  • Updated vignette.
  • Cleaned up documentation, hiding internal functions from the index.
  • Created unit tests.

hdme 0.2.2

Fixed random number seed issue which caused test to fail in R-devel.

hdme 0.2.1

Internal fix to fit_corrected_lasso and cv_corrected_lasso. Got rid of duplicated code by calling the function set_radius.

hdme 0.2.0

Since Rglpk does not install automatically on macOS, this package was moved from Imports to Suggests. In addition, lpSolveAPI was added to Suggests. This means that the package should build also on systems that do not have Rglpk, in particular the versions of macOS on CRAN.

The changes involved adding an optional linear solver from lpSolveAPI in the function musalgorithm().

hdme 0.1.1.9002

Added a plot.gds function, which plots the coefficients estimated by fit_gds.

hdme 0.1.1.9001

Internal adjustment, which removed importing of external packages into the namespace, and instead specified the functions explicitly using ::.

hdme 0.1.1

tidyverse has been removed from Suggests field DESCRIPTION. dplyr and tidyr have been added instead. Similarly, library(tidyverse) in the vignette has been replaced by library(dplyr), library(tidyr), and library(ggplot2).

hdme 0.1.0

hdme is now on CRAN.