Name Mode Size
..
1._Calibration_and_Normalization.Rd 100644 9 kb
Non-documented_objects.Rd 100644 1 kb
aroma.light-package.Rd 100644 6 kb
averageQuantile.Rd 100644 2 kb
backtransformAffine.Rd 100644 4 kb
backtransformPrincipalCurve.Rd 100644 6 kb
calibrateMultiscan.Rd 100644 6 kb
callNaiveGenotypes.Rd 100644 4 kb
distanceBetweenLines.Rd 100644 4 kb
findPeaksAndValleys.Rd 100644 3 kb
fitIWPCA.Rd 100644 5 kb
fitNaiveGenotypes.Rd 100644 2 kb
fitPrincipalCurve.Rd 100644 4 kb
fitXYCurve.Rd 100644 4 kb
iwpca.Rd 100644 5 kb
likelihood.smooth.spline.Rd 100644 4 kb
medianPolish.Rd 100644 2 kb
normalizeAffine.Rd 100644 10 kb
normalizeAverage.Rd 100644 1 kb
normalizeCurveFit.Rd 100644 9 kb
normalizeDifferencesToAverage.Rd 100644 2 kb
normalizeFragmentLength.Rd 100644 10 kb
normalizeQuantileRank.Rd 100644 4 kb
normalizeQuantileRank.matrix.Rd 100644 4 kb
normalizeQuantileSpline.Rd 100644 4 kb
normalizeTumorBoost.Rd 100644 6 kb
pairedAlleleSpecificCopyNumbers.Rd 100644 2 kb
plotDensity.Rd 100644 2 kb
plotMvsA.Rd 100644 1 kb
plotMvsAPairs.Rd 100644 1 kb
plotMvsMPairs.Rd 100644 1 kb
plotXYCurve.Rd 100644 2 kb
print.SmoothSplineLikelihood.Rd 100644 1 kb
robustSmoothSpline.Rd 100644 4 kb
sampleCorrelations.Rd 100644 2 kb
sampleTuples.Rd 100644 1 kb
wpca.Rd 100644 7 kb
README.md
<div id="badges"><!-- pkgdown markup --> <a href="https://bioconductor.org/packages/aroma.light/"><img border="0" src="https://bioconductor.org/shields/years-in-bioc/aroma.light.svg" alt="Bioconductor since badge"/></a> <a href="https://bioconductor.org/checkResults/release/bioc-LATEST/aroma.light/"><img border="0" src="https://bioconductor.org/shields/build/release/bioc/aroma.light.svg" alt="Bioconductor build status"/></a> <a href="https://bioconductor.org/checkResults/devel/bioc-LATEST/aroma.light/"><img border="0" src="https://bioconductor.org/shields/build/devel/bioc/aroma.light.svg" alt="Bioconductor build status"/></a> <a href="https://github.com/HenrikBengtsson/aroma.light/actions?query=workflow%3AR-CMD-check"><img border="0" src="https://github.com/HenrikBengtsson/aroma.light/actions/workflows/R-CMD-check.yaml/badge.svg?branch=develop" alt="R CMD check status"/></a> <a href="https://app.codecov.io/gh/HenrikBengtsson/aroma.light"><img border="0" src="https://codecov.io/gh/HenrikBengtsson/aroma.light/branch/develop/graph/badge.svg" alt="Coverage Status"/></a> </div> # aroma.light: Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types ## Installation R package aroma.light is available on [Bioconductor](https://www.bioconductor.org/packages/devel/bioc/html/aroma.light.html) and can be installed in R as: ```r install.packages("BiocManager") BiocManager::install("aroma.light") ``` ### Pre-release version To install the pre-release version that is available in Git branch `develop` on GitHub, use: ```r remotes::install_github("HenrikBengtsson/aroma.light", ref="develop") ``` This will install the package from source. <!-- pkgdown-drop-below --> ## Contributing To contribute to this package, please see [CONTRIBUTING.md](CONTRIBUTING.md).