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Bioconductor Changlog.
Fri, 10 Oct 2008
affycoretools
Small bugfix to plotPCA() so arguments x.coord and y.coord now actually work.
[/affycoretools] permanent link
Tue, 30 Sep 2008
affyContam
NAMESPACE ADDED
affyContam
various to pass check in time
affylmGUI
changes on dashes to ordinary ones
affyMvout
ok
affyMvout
improved DESCRIPTION description field
affycoretools
Bumped version number so that previous changes will be pushed out.
Removed dependency on hgfocus.db from affycoretools_biomart vignette.
[/affycoretools] permanent link
Mon, 25 Aug 2008
affycoretools
Removed hgfocus from Suggests, as it isn't used.
[/affycoretools] permanent link
Sun, 24 Aug 2008
affycoretools
Removed hgfocus from Suggests, as it isn't used.
more tweaks to modify the suggests/depends to be on .db annotations
changed the vignette depends entries
[/affycoretools] permanent link
Sat, 23 Aug 2008
affyPara
- computeExpressionSet improved
- CHANGELOG renamed to NEWS
affylmGUI
Ensure line endings in CITATION are LF only - may have been cause of errors(unexpected end of input) on Mac OSX R CMD check
affyContam
the b runs
minor for finish
ok
cooad
ok
minor
minor
affyContam
various
affyMvout
new object approach
affyMvout
passinc check
a new package on multivariate outlier detection with dimension reduction for affy QA
affyContam
get rid of pdf
a new package devoted to structured contamination of affymetrix CEL file data
affyMvout
a new package on multivariate outlier detection with dimension reduction for affy QA
affyPLM
Removed usage (or reference) to pstricks tex style in BioC vignettes.
affycomp
Removed usage (or reference) to pstricks tex style in BioC vignettes.
affy
Removed usage (or reference) to pstricks tex style in BioC vignettes.
affyQCReport
Removed usage (or reference) to pstricks tex style in BioC vignettes.
[/affyQCReport] permanent link
affyio
(1.9.1) Fix parsing problem for calvin command console format CEL files on big endian machines.
affyio
(1.9.1) Fix parsing problem for calvin command console format CEL files on big endian machines.
affycoretools
Fixed two bugs in probes2tableBM
[/affycoretools] permanent link
Mon, 21 Jul 2008
affyPLM
(1.17.1) Fix typo in get.psi.code (Geman-McClure issue)
(see http://article.gmane.org/gmane.science.biology.informatics.conductor/19075)
affyPara
affyPara 1.1.7 (build 17. July 2008)
- Parallelized partial loess normalization with permutation added
- all Package building errors fixed
- Package cleaning
affyPara
- mergeAffyBatches improved for great dim matrices (-> hgu133 Plus 2.0 chips)
- initAffyBatchSF: error for small numbers of nodes fixed
-distributeFiles and removeDistributedFiles improved
(default path variable, option for removing directory before distributing, some safety checks)
affy
(1.19.4) The method by which rma/justRMA access the median polish code from preprocess core has been changed. There should be no user noticable impact.
affypdnn
Moved 2 of the packages in Depends to Suggests
affy
Clarifications to hist() and boxplot() method descriptions in Affybatch-class man page.
- Applied patch by Markus Schmidberger
https://stat.ethz.ch/pipermail/bioc-devel/2008-June/001628.html
- bumped version number
affyPara
normalizeAffyBatchLoessPara memory improvement
affypdnn
Propagated fixes to the changes made in the release 2.2 branch
(revision 31982)
affy
Fixed affybatch.example.rda that now contains both affybatch.example and affybatch.example2.
affy
Updated affybatch.example
affyPara
vignette update
affyPara
Parallelized Loess normalization added
Parallelized Loess Normalization added
affypdnn
- fixed typo in man page
- bumped version number
affy
Update dependency versions
affypdnn
Modification to make R CMD check run faster
- Added dataset with precomputed values
- Added man page for that dataset
- Bumped version number
affyPara
small spelling error fixed
Bug fix for cluster with one node.