Entry: Ley
Aliases: Ley
Keywords: datasets
Description: Gene Expression Data from Mouse Immune response study, (2002)
URL: ../../../library/LPE/html/Ley.html

Entry: am.trans
Aliases: am.trans
Keywords: methods
Description: Transform replicated arrays into (A,M) format
URL: ../../../library/LPE/html/am.trans.html

Entry: baseOlig.error
Aliases: baseOlig.error
Keywords: methods
Description: Evaluates LPE variance function of M for quantiles of A within and experimental condition and then interpolates it for all genes.
URL: ../../../library/LPE/html/baseOlig.error.html

Entry: baseOlig.error.step1
Aliases: baseOlig.error.step1
Keywords: methods
Description: Evaluates LPE variance function of M for quantiles of A within and experimental condition by divinding the A in 100 intervals.
URL: ../../../library/LPE/html/baseOlig.error.step1.html

Entry: baseOlig.error.step2
Aliases: baseOlig.error.step2
Keywords: methods
Description: Evaluates LPE variance function of M for quantiles of A within and experimental condition. It is based on the adaptive number of intervals.
URL: ../../../library/LPE/html/baseOlig.error.step2.html

Entry: fdr.adjust
Aliases: fdr.adjust
Keywords: methods
Description: FDR adjustment procedures
URL: ../../../library/LPE/html/fdr.adjust.html

Entry: fixbounds.predict.smooth.spline
Aliases: fixbounds.predict.smooth.spline
Keywords: methods
Description: Makes the predicted variance non negative
URL: ../../../library/LPE/html/fixbounds.predict.smooth.spline.html

Entry: iqr
Aliases: iqr
Keywords: methods
Description: Inter-quartile range
URL: ../../../library/LPE/html/iqr.html

Entry: lowess.normalize
Aliases: lowess.normalize
Keywords: methods
Description: lowess normalization of the data (based on M vs A graph)
URL: ../../../library/LPE/html/lowess.normalize.html

Entry: lpe
Aliases: lpe
Keywords: methods
Description: Evaluates local pooled error significance test
URL: ../../../library/LPE/html/lpe.html

Entry: mt.rawp2adjp
Aliases: mt.rawp2adjp
Keywords: htest
Description: Adjusted p-values for simple multiple testing procedures
URL: ../../../library/LPE/html/mt.rawp2adjp.html

Entry: n.genes.adaptive.int
Aliases: n.genes.adaptive.int
Keywords: methods
Description: Calcuates the number of genes in various intervals adaptively.
URL: ../../../library/LPE/html/n.genes.adaptive.int.html

Entry: permute
Aliases: permute
Keywords: methods
Description: Calculating all possible permutations of a vector
URL: ../../../library/LPE/html/permute.html

Entry: preprocess
Aliases: preprocess
Keywords: methods
Description: Preprocessing the data (IQR normalization, thresholding, log- transformation, and lowess normalization)
URL: ../../../library/LPE/html/preprocess.html

Entry: quan.norm
Aliases: quan.norm
Keywords: methods
Description: Finding quartile range
URL: ../../../library/LPE/html/quan.norm.html

Entry: quartile.normalize
Aliases: quartile.normalize
Keywords: methods
Description: Normalization based on quartile range
URL: ../../../library/LPE/html/quartile.normalize.html

Entry: resamp.adj
Aliases: resamp.adj
Keywords: methods
Description: Resampling based fdr adjustment
URL: ../../../library/LPE/html/resamp.adj.html
