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Bioconductor Changlog.
Tue, 13 Oct 2009
affyPLM
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
affyPLM
(1.15.10) affyPLM now requires preprocessCore (>=1.1.7)
(1.15.9) rma background correction code from preprocessCore is now used
source files rma_background2.c and rma_background2.h have been removed
affyPLM
(1.15.8) Remove the source file weightedkerneldensity.c which was not being used by any other code in any way. In otherwords, its removal will have no effect for users of the package.
affyPLM
Use the recently added Rzlib library in R-devel on Windows.
affyPLM
fix missing documentation warnings
affyPLM
(1.15.3) Fixed very minor typo in vignette
(1.15.2) Remove some legacy C code from do_PLMrlm.c. This code was not part of the workflow for any user constructed fitPLM call. Removing it should help improve maintainability.
affyPLM
(1.15.5) fix show(Pset) and summary(Pset) which were slightly broken.
affyPLM
(1.15.4) Removed fitPLM.old, PLM.designmatrix, PLM.designmatrix2 which were all legacy defuct functions.
(1.15.3) Fixed very minor typo in vignette
affyPLM
House Cleaning: Removing INDEX files from svn. These files are created in the build process and shouldn't be version controlled.
affyPLM
(1.19.2) Change all relevant VECTOR_ELT/SET_VECTOR_ELT to STRING_ELT/SET_STRING_ELT. A number of functions are affected by this change (fitPLM() being a primary example).
affyPLM
Reformatted the Licence information in DESCRIPTION files to bring them into compliance.
affyPLM
Bumped pkg versions for BioC 2.5 devel line.
Bumped pkg versions for BioC 2.4 release.
affyPLM
Added zlib library to non-Windows builds.
affyPLM
Updated CHANGELOG to reflect changes to 1.15.6.
Replaced reference to soon to be defunct class exprSet with ExpressionSet.
affyPLM
(1.15.1) Add an appropriate CITATION file
affyPLM
(1.15.9) rma background correction code from preprocessCore is now used
source files rma_background2.c and rma_background2.h have been removed
affyPLM
Removed geneplotter comment from vignette.
fix missing documentation warnings
affyPLM
fixes to affyPLM to accommodate the changes to affy:
1) new methods for updating the options
2) affybatch.example is now gone
affyPLM
Removed usage (or reference) to pstricks tex style in BioC vignettes.
affyPLM
(1.19.5) Fix issue with quality assessment vignette not building correctly due to internal changes in NUSE() function
(1.19.4) Fix additional NAMESPACE issue
affyPLM
removed quotes from do.call
affyPLM
Bumping version numbers for BioC 2.4 devel.
Bumping version numbers for BioC 2.3 release.
affyPLM
(1.17.1) Fix typo in get.psi.code (Geman-McClure issue)
(see http://article.gmane.org/gmane.science.biology.informatics.conductor/19075)
affyPLM
(1.19.1 affyPLM) (1.5.1 preprocessCore) Fitting the default model using fitPLM() or rcModelPLM() now returns both probe effect estimate and corresponding standard error for the last probe in the model (note that the default model constrains the sum of the probe effects to be equal to 0)
affyPLM
Reformatted the Licence information in DESCRIPTION files to bring them into compliance.
affyPLM
Added require/library calls to affydata to retrieve Dilution dataset.
(1.19.5) Fix issue with quality assessment vignette not building correctly due to internal changes in NUSE() function
affyPLM
(1.19.2) Change all relevant VECTOR_ELT/SET_VECTOR_ELT to STRING_ELT/SET_STRING_ELT. A number of functions are affected by this change (fitPLM() being a primary example).
affyPLM
(1.19.3) Added a NAMESPACE