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

## Documentation for package ‘HEM’ version 1.50.0

- 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