Files in markdane/MEMA
Functions to preprocess and normalize MEMA data
.DS_Store
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
MEMA.Rproj
NAMESPACE
R/MEPLINCSFunctions.R
R/PlottingFunctions.R
R/PreProcessCellFunctions.R
R/QA_functions.R
R/RUV_normalize_functions.R
R/annotate_functions.R
R/common_signal_functions.R
R/create_data_levels.R
R/derivedParameter_functions.R
R/gal_parse_functions.R
R/gating.R
R/normalize_functions.R
R/population_annotate_functions.R
R/utils.R
README.md
inst/CITATION
inst/doc/Preprocess-Levels1and2.R
inst/doc/Preprocess-Levels1and2.Rmd
inst/doc/Preprocess-Levels1and2.html
inst/doc/Preprocess-Levels3and4.R
inst/doc/Preprocess-Levels3and4.Rmd
inst/doc/Preprocess-Levels3and4.html
man/.Rapp.history
man/CV.Rd
man/QASpotData.Rd
man/QASpotLevelData.Rd
man/RUVArrayWithResiduals.Rd
man/RUVIII.Rd
man/addBarcodes.Rd
man/addOmeroIDs.Rd
man/addPolarCoords.Rd
man/addSpotProportions.Rd
man/boundedLog2.Rd
man/boundedLogit.Rd
man/calc2NProportion.Rd
man/calcAdjacency.Rd
man/calcProportion.Rd
man/calcQAScore.Rd
man/calcResidual.Rd
man/calcTheta.Rd
man/cellNeighbors.Rd
man/cleanColumnNames.Rd
man/cleanCommonSignalDt.Rd
man/cleanLegacyIssues.Rd
man/combineSignals.Rd
man/compressHA.Rd
man/convertColumnNames.Rd
man/create8WellHistograms.Rd
man/create8WellPseudoImage.Rd
man/createRUVM.Rd
man/findPerimeterCell.Rd
man/formatCP96Well.Rd
man/gateCells.Rd
man/gateOnQuantile.Rd
man/gateOnlocalMinima.Rd
man/getBarcodes.Rd
man/getCPData.Rd
man/getICData.Rd
man/getLogMetadata.Rd
man/getMetadata.Rd
man/getOmeroIDs.Rd
man/getSpotLevelData.Rd
man/getSpotMetadata.Rd
man/getWellMetadata.Rd
man/kmeansCluster.Rd
man/kmeansClusterValue.Rd
man/labelOuterCells.Rd
man/localMinima.Rd
man/loessModel.Rd
man/loessNorm.Rd
man/loessNormArray.Rd
man/logIntensities.Rd
man/medianNorm.Rd
man/mergeSpot8WellMetadata.Rd
man/mergeSpot96WellMetadata.Rd
man/normRUVLoessResiduals.Rd
man/numericMedian.Rd
man/plotLEHmap.Rd
man/plotSCCHeatmapsQAHistograms.Rd
man/preprocessCommonSignalsLevel3.Rd
man/preprocessLevel4.Rd
man/processan2omero.Rd
man/readLogData.Rd
man/readMetadata.Rd
man/readSpotMetadata.Rd
man/rotateMetadata.Rd
man/se.Rd
man/signalResidualMatrix.Rd
man/spotNormIntensities.Rd
man/summarizeToSpot.Rd
man/wellAN.Rd
man/writeCellLevel.Rd
tests/testthat.R
tests/testthat/testMEMAQA.R
vignettes/Preprocess-Levels1and2.Rmd
vignettes/Preprocess-Levels3and4.Rmd
