Dear Emacs, please make this -*-Text-*- mode! ************************************************** * * * 3.4 SERIES NEWS * * * ************************************************** CHANGES IN R VERSION 3.4.0 NEW FEATURES o Added "cosine" distance as a reasonable metric. CHANGES IN R VERSION 3.3.13 BUG FIXES o Not exactly sure if this qualifies as a bug fix: modified one of the man pages to remove an unnecessary cross-reference to a package that might not be available. CHANGES IN R VERSION 3.3.10 BUG FIXES o Not exactly sure if this qualifies as a bug fix: modified some of the test scripts so that they don't raise errors (because of not matching the output) on a few of the extra installations tested by CRAN. The underlying issue appears to be in the results of "hclust", which finds the same groups but assigns them different cluster-labels on some machines. CHANGES IN R VERSION 3.3.8 UPDATES o Modified use of S4 classes to avoid deprecated and discouraged elements. CHANGES IN R VERSION 3.3.0 FEATURES o Added S4 methods "identify" and "text" for the SamplePCA class. CHANGES IN R VERSION 3.2.0 BREAKING CHANGES o Finished creating a separate package for the bimodalIndex function, and so removed duplicate code from here. CHANGES IN R VERSION 3.1.0 BREAKING CHANGES o Refactored to move the lungData set out of this package into the newly organized "oompaData" package. ADMINISTRATIVE o Changed the LICENSE to Apache 2.0. CHANGES IN R VERSION 3.0.1 GENERAL o Moved to R-Forge. BUG FIXES o Made compatible with new R check steps that verify DESCRIPTION and NAMESPACE dependencies. o Replaced use of 'plclust' (newly deprecated in R) with 'plot'. CHANGES IN R VERSION 3.0.0 REFACTORING CHANGES o Removed the dependence on the PreProcess package. CHANGES IN R VERSION 2.14.1 BUG FIXES o Moved the previously added .Rout.save files to correct directory. o Added 'TailRank' dependency to Suggests: (used in tests). o Replaced platform-specific windows() method with dev.new() method to invoke default graphics device instead. CHANGES IN R VERSION 2.14.0 NEW FEATURES o Added .Rout.save files for the ClassComparison tests. o Added test for the bimodalIndex function. o Created tests for ClassDiscovery from /inst/samples. o Moved vignettes from /inst/doc to /vignettes. o Added optional argument to screeplot() method. CHANGES IN R VERSION 2.13.4 BUG FIXES o Corrected spelling in documentation. CHANGES IN R VERSION 2.10.0 NEW FEATURES o Modified 'bimodalIndex' function to return proportion of samples in group 1 rather than proportion in larger group. o Moved redgreen, jetColors, etc. into the oompaBase package. BUG FIXES o Fixed labeling error in 'bimodalIndex' function. CHANGES IN R VERSION 2.9.0 NEW FEATURES o Added support for computing the "bimodalIndex" as defined by Wang et al. in Cancer Informatics. o Added a subset of the Nature Medicine lung cancer dataset to the package in order to provide meaningful examples for the computation of the bimodality index. o Added support for namespaces.