ABarray: Microarray QA and statistical data analysis for Applied Biosystems Genome Survey Microrarray (AB1700) gene expression data.

Automated pipline to perform gene expression analysis for Applied Biosystems Genome Survey Microarray (AB1700) data format. Functions include data preprocessing, filtering, control probe analysis, statistical analysis in one single function. A GUI interface is also provided. The raw data, processed data, graphics output and statistical results are organized into folders according to the analysis settings used.

AuthorYongming Andrew Sun
Date of publicationNone
MaintainerYongming Andrew Sun <sunya@appliedbiosystems.com>
LicenseGPL
Version1.42.0

View on Bioconductor

Functions

ABarray Man page
ABarrayGUI Man page
calcsn Man page
concord Man page
cvv Man page
cvvPlot Man page
doANOVA Man page
doLPE Man page
doPlotEset Man page
doPlotFCT Man page
doVennDiagram Man page
drawVennDiagram Man page
getMemberEset Man page
getPantherMap Man page
hclusterPlot Man page
icpPlot Man page
imputeFlag Man page
lpe.fdr.BH Man page
mamaplot Man page
matrixPlot Man page
mvaPair2 Man page
panel.cor Man page
panel.scatter Man page
qnNormalize Man page
rgcolorsfunc Man page
savejpg Man page
scaleColorBar Man page
snSummary Man page

Files

ABarray/DESCRIPTION
ABarray/NAMESPACE
ABarray/R
ABarray/R/ABarray.R ABarray/R/ABarrayGUI.R ABarray/R/attachMessage.R ABarray/R/calcsn.R ABarray/R/concord.R ABarray/R/cvv.R ABarray/R/cvvPlot.R ABarray/R/doANOVA.R ABarray/R/doLPE.R ABarray/R/doPlotEset.R ABarray/R/doPlotFCT.R ABarray/R/doVennDiagram.R ABarray/R/drawVennDiagram.R ABarray/R/getMemberEset.R ABarray/R/getPantherMap.R ABarray/R/hclusterPlot.R ABarray/R/icpPlot.R ABarray/R/imputeFlag.R ABarray/R/lpe.fdr.BH.R ABarray/R/mamaplot.R ABarray/R/matrixPlot.R ABarray/R/mvaPair2.R ABarray/R/panel.cor.R ABarray/R/panel.scatter.R ABarray/R/qnNormalize.R ABarray/R/rgcolorsfunc.R ABarray/R/savejpg.R ABarray/R/scaleColorBar.R ABarray/R/snSummary.R
ABarray/build
ABarray/build/vignette.rds
ABarray/inst
ABarray/inst/doc
ABarray/inst/doc/ABarray.Rnw
ABarray/inst/doc/ABarray.pdf
ABarray/inst/doc/ABarrayGUI.Rnw
ABarray/inst/doc/ABarrayGUI.pdf
ABarray/man
ABarray/man/ABarray.Rd ABarray/man/ABarrayGUI.Rd ABarray/man/calcsn.Rd ABarray/man/concord.Rd ABarray/man/cvv.Rd ABarray/man/cvvPlot.Rd ABarray/man/doANOVA.Rd ABarray/man/doLPE.Rd ABarray/man/doPlotEset.Rd ABarray/man/doPlotFCT.Rd ABarray/man/doVennDiagram.Rd ABarray/man/drawVennDiagram.Rd ABarray/man/getMemberEset.Rd ABarray/man/getPantherMap.Rd ABarray/man/hclusterPlot.Rd ABarray/man/icpPlot.Rd ABarray/man/imputeFlag.Rd ABarray/man/lpe.fdr.BH.Rd ABarray/man/mamaplot.Rd ABarray/man/matrixPlot.Rd ABarray/man/mvaPair2.Rd ABarray/man/panel.cor.Rd ABarray/man/panel.scatter.Rd ABarray/man/qnNormalize.Rd ABarray/man/rgcolorsfunc.Rd ABarray/man/savejpg.Rd ABarray/man/scaleColorBar.Rd ABarray/man/snSummary.Rd
ABarray/vignettes
ABarray/vignettes/ABarray.Rnw
ABarray/vignettes/ABarrayGUI.Rnw
ABarray/vignettes/Figure
ABarray/vignettes/Figure/ab1700gui.pdf
ABarray/vignettes/Figure/dirChangeFig.pdf
ABarray/vignettes/Figure/dirSelectFig.pdf
ABarray/vignettes/Figure/venn-threeWay.pdf
ABarray/vignettes/Figure/venn-twoWay.pdf

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.