Heterogeneous error model for identification of differentially expressed genes under multiple conditions

---

Documentation for package ‘HEM’ version 1.72.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

am.tran	AM transformation for LPE
am.tran.half	AM transformation for LPE
base.ASE.Olig	Baseline ASE estimation for oligonucleotide arrays
base.error.Olig	Baseline error estimation for oligonucleotide arrays
base.error.Olig.quanOnly	Baseline error estimation for oligonucleotide arrays
base.PSE.Olig	Baseline PSE estimation for oligonucleotide arrays
boot.base.ASE.Olig	Baseline error bootstrap estimation for oligonucleotide arrays
boot.base.error.Olig	Baseline error bootstrap estimation for oligonucleotide arrays
boot.base.PSE.Olig	Baseline error bootstrap estimation for oligonucleotide arrays
fixbound.predict.smooth.spline	Prediction using smoothing spine
hem	Heterogeneous Error Model for Identification of Differential Expressed Genes Under Multiple Conditions
hem.eb.prior	Empirical Bayes (EB) Prior Specification
hem.fdr	FDR Evaluation
hem.null.no	Generation of null data
hem.null.one	Generation of null data
hem.null.two	Generation of null data
hem.preproc	Preprocessing
mubcp	Gene expression data for mouse B cell development
nonpar.error.Olig	Baseline error nonparametric estimation for oligonucleotide arrays
nonpar.no.error.Olig	Baseline error nonparametric estimation for oligonucleotide arrays
nonpar.rep.error.Olig	Baseline error nonparametric estimation for oligonucleotide arrays
par.error.Olig	Baseline error parametric estimation for oligonucleotide arrays
par.no.error.Olig	Baseline error parametric estimation for oligonucleotide arrays
par.rep.error.Olig	Baseline error parametric estimation for oligonucleotide arrays
pbrain	Gene expression data for primate brains
permut	Permutation
quant.norm	Quantile normalization
quant.normal	Normalization
quant.normal2	Normalization
quant.normalize	Quantile normalization
remove.sig.genes	Remove significant genes