Normalize Gene Expression Data using Evaluated Methods
calcFactorRLE
calcFactorUpperquartile
calcFactorWeighted
change_colours
CV2AUCVC
estimateSizeFactorsForMatrix
filteredZero
findGenes
gatherCors
gatherCors4Matrices
gatherCVs
gatherCVs4Matrices
gatherFactors
getArea
getAUCVC
getAUCVCs
getCor
getCorMedians
getCV
getFactors
getNormMatrix
gridAUCVC
gridAUCVC4Matrices
identifyUbq
identifyUbqRepeat
nonzeroRatio2AUCVC
optTU
plotCors
plotCVs
plotHC
It provides a framework and a fast and simple way for researchers to evaluate methods (particularly some data-driven methods or their own methods) and then select a best one for data normalization in the gene expression analysis, based on the consistency of metrics and the consistency of datasets. Zhenfeng Wu, Weixiang Liu, Xiufeng Jin, Deshui Yu, Hua Wang, Gustavo Glusman, Max Robinson, Lin Liu, Jishou Ruan and Shan Gao (2018) <doi:10.1101/251140>.