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Tue, 13 Oct 2009

affyPara
Added affydata to the suggested package list to use Dilution data set. Also fixed some man page issues.

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affyPara
Bug Fix in preproPara call

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affyPara
Updated all examples and vignettes to use Dilution dataset, not defunct affybatch.example. Bumped version.

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affyPara
read.affybatchPara added

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affyPara
affyPara 1.3.5 (build 18. December 2008)
- New functions makeCluster and stopCluster (overloading snow functions)
-- cluster object will be saved as default parameter in .affyParaInternalEnv$cl
-- and default cluster object will be used in every preprocessing function
--> no more cluster object handling is required: improvement for usability!
- boxplotPara and MAplotPara improved
- documentation added and fixed for new structure

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affyPara
affyPara 1.1.7 (build 17. July 2008)
- Parallelized partial loess normalization with permutation added
- all Package building errors fixed
- Package cleaning

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affyPara
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

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affyPara
- additional tool to boxplotPara added: bagplot
- and qaSummary added

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affyPara
subsamples no work correct

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affyPara
vignette update

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affyPara
old code removed
Improvements in directory creation
cleanup improved
added to svn
added to svn
awfull bug in checks removed
improved functionality

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affyPara
vignette update
build error removed
update for vigniette

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affyPara
normalizeAffyBatchLoessPara memory improvement

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affyPara
bgcPara: rm.list="ALL" added
In function initAffyBatchSF: default parameter for rm.list changed

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affyPara
mergeAffyBatch improved for memory amd time
mergeAffyBatch improved for memory amd time
error for multiprocessor machines fixed

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affyPara
first Version of MAplotPara added

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affyPara
Adds affyPara to bioconductor 2.2

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affyPara
update for figures

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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)

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affyPara
boxplotPara improved
boxplotPara functions improved

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affyPara
vsnInputPara class doku added
Data distribution and removement improved for multiprocessor machines.
R help files adapted to changes.
justvsnPara Doku added
awfull bug in checks remuved

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affyPara
- boxplotPara improved
- MAplotPara now works
- documentation added (no more warnings)
improvement of documentation

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affyPara
small code improvements and bugfixes in distribute files (for multiporcessors)

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affyPara
fix in computation time output

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affyPara
Bumping version numbers for BioC 2.4 devel.
Bumping version numbers for BioC 2.3 release.

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affyPara
- vsnPara (incl. doku) added
- affyPara now works on multiprocessor machines and mulicomputer systems correctly
- a lot of code improvements especially in data distribution

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affyPara
- computeExpressionSet improved
- CHANGELOG renamed to NEWS

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affyPara
Parallelized vsn now supports normalization with reference
In function 'initAffyBatchSF' rm.all changed to rm.list

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affyPara
update for rmaPara

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affyPara
vsn TODOs removed
small bugfix in vsn2Paara

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affyPara
Bumped pkg versions for BioC 2.5 devel line.
Bumped pkg versions for BioC 2.4 release.
small parameter update
small parameter update

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affyPara
Summarization optimized

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affyPara
error in justvsnPara removed

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affyPara
small spelling error fixed
Bug fix for cluster with one node.

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affyPara
improvement for removeFiles
small improvement for distribute files
Option verbose set to getOption("verbose") and added . to names of internal functions

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affyPara
fix in vsnMatrixPara for pstartHeuristic

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affyPara
Parallelized Loess normalization added
Parallelized Loess Normalization added

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