arrayQuality: Assessing array quality on spotted arrays

Functions for performing print-run and array level quality assessment.

AuthorAgnes Paquet and Jean Yee Hwa Yang <yeehwa@stat.berkeley.edu>
Date of publicationNone
MaintainerAgnes Paquet <paquetagnes@yahoo.com>
LicenseLGPL
Version1.52.0
http://arrays.ucsf.edu/

View on Bioconductor

Functions

12Mm250.gpr Man page
9Mm137.gpr Man page
agcontrolCode Man page
agQuality Man page
arrayControls Man page
arrayReplicates Man page
arrayScal Man page
BEbin.linear Man page
controlCodeHeebo Man page
controlCodeMeebo Man page
EMSplit Man page
getSpikeIds Man page
getSpikeIndex Man page
globalQuality Man page
gpFlagWt Man page
gpQuality Man page
heeboQuality Man page
heeboQualityPlots Man page
HeeboSpotTypes Man page
HsReferenceDB Man page
index.html Man page
maQualityPlots Man page
meeboQuality Man page
meeboQualityPlots Man page
MeeboSpotTypes Man page
MmDEGenes Man page
MmReferenceDB Man page
outputNormData Man page
PRv9mers Man page
PRvQCHyb Man page
qcScore Man page
qpBEplot.linear Man page
qpBoxplotMeebo Man page
qpDotPlots Man page
qpDotPlotsEEBO Man page
qpDotPlotsMeebo Man page
qpDotPlotsMeebo2 Man page
qpHexbin Man page
qpImage Man page
qpMAPlots Man page
qpMisMatchPlot Man page
qpPTLoess Man page
qpS2N Man page
qpS2Neebo Man page
qpS2Nmeebo Man page
qpTiling Man page
qualBoxplot Man page
quality2HTML Man page
qualityScore Man page
readAgilent Man page
readAllSpikes Man page
readcontrolCode Man page
readGPR Man page
readSpikeTypes Man page
readSpot Man page
replicatesAvariance Man page
scaleRefTable Man page
setCtlCol Man page
slideQuality Man page
Spike.Cy5vsCy3 Man page
Spike.Individual.Sensitivity Man page
Spike.MMplot Man page
Spike.MM.Scatter Man page
Spike.Sensitivity Man page
spotQuality Man page

Files

arrayQuality/DESCRIPTION
arrayQuality/NAMESPACE
arrayQuality/R
arrayQuality/R/PRQCv1.R arrayQuality/R/PRQCv2.R arrayQuality/R/agQuality.R arrayQuality/R/arrayControl.R arrayQuality/R/gpQuality.R arrayQuality/R/heeboQuality.R arrayQuality/R/heeboSetQC.R arrayQuality/R/meeboQuality.R arrayQuality/R/qpHeeboFunc.R arrayQuality/R/qpHexbin.R arrayQuality/R/qpMeeboFunc.R arrayQuality/R/qualFunc.R arrayQuality/R/qualityPlots.R arrayQuality/R/spikeIn.R arrayQuality/R/spotQuality.R
arrayQuality/data
arrayQuality/data/HsReferenceDB.RData
arrayQuality/data/MmDEGenes.RData
arrayQuality/data/MmReferenceDB.RData
arrayQuality/inst
arrayQuality/inst/Heebo
arrayQuality/inst/Heebo/63421.gpr
arrayQuality/inst/Heebo/DCV2.0June06.txt
arrayQuality/inst/Heebo/hoc.gal
arrayQuality/inst/Meebo
arrayQuality/inst/Meebo/MeeboSpotType.txt
arrayQuality/inst/Meebo/RDI108_n.gpr
arrayQuality/inst/Meebo/StanfordDCV1.7complete.txt
arrayQuality/inst/gprQCData
arrayQuality/inst/gprQCData/12Mm250.gpr
arrayQuality/inst/gprQCData/9Mm137.gpr
arrayQuality/inst/gprQCData/index.html
arrayQuality/man
arrayQuality/man/MmDEGenes.Rd arrayQuality/man/PRv9mers.Rd arrayQuality/man/PRvQCHyb.Rd arrayQuality/man/agQuality.Rd arrayQuality/man/arrayQuality-internal.Rd arrayQuality/man/globalQuality.Rd arrayQuality/man/gpQuality.Rd arrayQuality/man/gprDB.Rd arrayQuality/man/heeboQuality.Rd arrayQuality/man/heeboQualityPlots.Rd arrayQuality/man/maQualityPlots.Rd arrayQuality/man/meeboQuality.Rd arrayQuality/man/meeboQualityPlots.Rd arrayQuality/man/prdata.Rd arrayQuality/man/qcScore.Rd arrayQuality/man/qualBoxplot.Rd arrayQuality/man/qualityScore.Rd arrayQuality/man/readAgilent.Rd arrayQuality/man/readGPR.Rd arrayQuality/man/readSpikeTypes.Rd arrayQuality/man/readSpot.Rd arrayQuality/man/readcontrolCode.Rd arrayQuality/man/scaleRefTable.Rd arrayQuality/man/slideQuality.Rd arrayQuality/man/spotQuality.Rd
arrayQuality/vignettes
arrayQuality/vignettes/basicQuality.html
arrayQuality/vignettes/customQuality.html
arrayQuality/vignettes/images
arrayQuality/vignettes/images/9mersDiagnosticPlot.png
arrayQuality/vignettes/images/QCHybDiagPlot.png
arrayQuality/vignettes/images/comparativeBoxplot.png
arrayQuality/vignettes/images/genHybDiagPlot.png
arrayQuality/vignettes/images/htmlReport.png
arrayQuality/vignettes/images/lifecycle.png
arrayQuality/vignettes/images/mySpotTypes.png
arrayQuality/vignettes/images/qualityDiagram.png
arrayQuality/vignettes/index.html
arrayQuality/vignettes/meeboQualityGuide.htm
arrayQuality/vignettes/meeboQualityGuide_files
arrayQuality/vignettes/meeboQualityGuide_files/filelist.xml
arrayQuality/vignettes/meeboQualityGuide_files/header.htm
arrayQuality/vignettes/meeboQualityGuide_files/image001.jpg
arrayQuality/vignettes/meeboQualityGuide_files/image003.jpg
arrayQuality/vignettes/meeboQualityGuide_files/image005.png
arrayQuality/vignettes/meeboQualityGuide_files/image007.png
arrayQuality/vignettes/meeboQualityGuide_files/image009.png
arrayQuality/vignettes/meeboQualityGuide_files/image011.png
arrayQuality/vignettes/meeboQualityGuide_files/image013.png
arrayQuality/vignettes/meeboQualityGuide_files/image015.png
arrayQuality/vignettes/meeboQualityGuide_files/image017.png
arrayQuality/vignettes/meeboQualityGuide_files/image019.png
arrayQuality/vignettes/meeboQualityGuide_files/image021.png
arrayQuality/vignettes/print-runQC.html

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.