Package: PreProcess 3.1.7

Kevin R. Coombes

PreProcess: Basic Functions for Pre-Processing Microarrays

Provides classes to pre-process microarray gene expression data as part of the OOMPA collection of packages described at <http://oompa.r-forge.r-project.org/>.

Authors:Kevin R. Coombes

PreProcess_3.1.7.tar.gz
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PreProcess.pdf |PreProcess.html✨
PreProcess/json (API)
NEWS

# Install 'PreProcess' in R:
install.packages('PreProcess', repos = c('https://r-forge.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://r-forge.r-project.org/projects/oompa

On CRAN:

microarraypreprocessing

5.09 score 29 scripts 206 downloads 1 mentions 32 exports 2 dependencies

Last updated 3 months agofrom:ff29702983. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 10 2024
R-4.5-winOKDec 10 2024
R-4.5-linuxOKDec 10 2024
R-4.4-winOKDec 10 2024
R-4.4-macOKDec 10 2024
R-4.3-winOKDec 10 2024
R-4.3-macOKDec 10 2024

Exports:analyzeChannelchannelizeChannelTypeCompleteChannelellipsef.above.threshf.cordf.oneway.rankingsf.qqf.qtfliplrflipudgetDesignmakeDefaultPipelinePIPELINE.MDACC.DEFAULTPIPELINE.STANDARDPROC.BACKGROUNDPROC.CORRECTED.SIGNALPROC.GLOBAL.NORMALIZATIONPROC.LOG.TRANSFORMPROC.MEDIAN.EXPRESSED.NORMALIZATIONPROC.NEG.CORRECTED.SIGNALPROC.SD.SIGNALPROC.SIGNALPROC.SIGNAL.TO.NOISEPROC.SUBSET.MEAN.NORMALIZATIONPROC.SUBSET.NORMALIZATIONPROC.SUBTRACTORPROC.THRESHOLDprocesssetDesign

Dependencies:clusteroompaBase

OOMPA PreProcessing

Rendered fromoompa-prep.Rnwusingutils::Sweaveon Dec 10 2024.

Last update: 2017-04-25
Started: 2014-02-10

Readme and manuals

Help Manual

Help pageTopics
Class "Channel"Channel Channel-class hist,Channel-method image,Channel-method plot,Channel,missing-method print,Channel-method show,Channel-method summary,Channel-method
Method "channelize"channelize channelize,ANY-method channelize-method
Class "ChannelType"ChannelType ChannelType-class getDesign print,ChannelType-method setDesign show,ChannelType-method summary,ChannelType-method
Class "CompleteChannel"analyze,CompleteChannel-method as.data.frame,CompleteChannel-method channelize,CompleteChannel-method CompleteChannel CompleteChannel-class image,CompleteChannel-method plot,CompleteChannel,missing-method print,CompleteChannel-method PROC.BACKGROUND PROC.CORRECTED.SIGNAL PROC.NEG.CORRECTED.SIGNAL PROC.SD.SIGNAL PROC.SIGNAL PROC.SIGNAL.TO.NOISE process,CompleteChannel,Processor-method show,CompleteChannel-method summary,CompleteChannel-method
Methods "process" and "analyze"analyze analyze,ANY-method process process,ANY-method
OOMPA graphical utility functionsellipse f.qq f.qt
OOMPA Matrix Utility Functionsfliplr flipud
Class "Pipeline"makeDefaultPipeline Pipeline Pipeline-class PIPELINE.MDACC.DEFAULT PIPELINE.STANDARD process,ANY,Pipeline-method summary,Pipeline-method
Class "Processor"PROC.GLOBAL.NORMALIZATION PROC.LOG.TRANSFORM PROC.MEDIAN.EXPRESSED.NORMALIZATION PROC.SUBSET.MEAN.NORMALIZATION PROC.SUBSET.NORMALIZATION PROC.SUBTRACTOR PROC.THRESHOLD process,Channel,Processor-method process,Processor-method Processor Processor-class summary,Processor-method
OOMPA Statistical Utility Functionsf.above.thresh f.cord f.oneway.rankings