Package: HEM 1.85.0

HyungJun Cho

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

This package fits heterogeneous error models for analysis of microarray data

Authors:HyungJun Cho <[email protected]> and Jae K. Lee <[email protected]>

HEM_1.85.0.tar.gz
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manual.pdf |manual.html✨
card.svg |card.png
HEM/json (API)

# Install 'HEM' in R:
install.packages('HEM', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • mubcp - Gene expression data for mouse B cell development
  • pbrain - Gene expression data for primate brains

On BioConductor:HEM-1.85.0(bioc 3.24)HEM-1.84.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

microarraydifferentialexpression

4.30 score 6 scripts 468 downloads 27 mentions 27 exports 3 dependencies

Last updated from:db104754ba. Checks:1 ERROR, 7 NOTE, 2 OK, 3 WARNING, 1 FAIL. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksERROR130
linux-devel-arm64NOTE110
linux-devel-x86_64NOTE163
source / vignettesOK135
linux-release-arm64NOTE123
linux-release-x86_64NOTE130
macos-release-arm64WARNING101
macos-release-x86_64WARNING191
macos-oldrel-arm64FAIL88
macos-oldrel-x86_64WARNING230
windows-develNOTE95
windows-releaseNOTE93
windows-oldrelNOTE75
wasm-releaseOK111

Exports:am.tranam.tran.halfbase.ASE.Oligbase.error.Oligbase.error.Olig.quanOnlybase.PSE.Oligboot.base.ASE.Oligboot.base.error.Oligboot.base.PSE.Oligfixbound.predict.smooth.splinehemhem.eb.priorhem.fdrhem.null.nohem.null.onehem.null.twohem.preprocnonpar.error.Olignonpar.no.error.Olignonpar.rep.error.Oligpar.error.Oligpar.no.error.Oligpar.rep.error.Oligpermutquant.normalquant.normal2remove.sig.genes

Dependencies:BiobaseBiocGenericsgenerics

HEM Overview

Rendered fromHEM.Rnwusingutils::Sweaveon Jun 11 2026.

Last update: 2013-11-01
Started: 2013-11-01

Readme and manuals

Help Manual

Help pageTopics
AM transformation for LPEam.tran
AM transformation for LPEam.tran.half
Baseline ASE estimation for oligonucleotide arraysbase.ASE.Olig
Baseline error estimation for oligonucleotide arraysbase.error.Olig
Baseline error estimation for oligonucleotide arraysbase.error.Olig.quanOnly
Baseline PSE estimation for oligonucleotide arraysbase.PSE.Olig
Baseline error bootstrap estimation for oligonucleotide arraysboot.base.ASE.Olig
Baseline error bootstrap estimation for oligonucleotide arraysboot.base.error.Olig
Baseline error bootstrap estimation for oligonucleotide arraysboot.base.PSE.Olig
Prediction using smoothing spinefixbound.predict.smooth.spline
Heterogeneous Error Model for Identification of Differential Expressed Genes Under Multiple Conditionshem
Empirical Bayes (EB) Prior Specificationhem.eb.prior
FDR Evaluationhem.fdr
Generation of null datahem.null.no
Generation of null datahem.null.one
Generation of null datahem.null.two
Preprocessinghem.preproc
Gene expression data for mouse B cell developmentmubcp
Baseline error nonparametric estimation for oligonucleotide arraysnonpar.error.Olig
Baseline error nonparametric estimation for oligonucleotide arraysnonpar.no.error.Olig
Baseline error nonparametric estimation for oligonucleotide arraysnonpar.rep.error.Olig
Baseline error parametric estimation for oligonucleotide arrayspar.error.Olig
Baseline error parametric estimation for oligonucleotide arrayspar.no.error.Olig
Baseline error parametric estimation for oligonucleotide arrayspar.rep.error.Olig
Gene expression data for primate brainspbrain
Permutationpermut
Quantile normalizationquant.norm
Normalizationquant.normal
Normalizationquant.normal2
Quantile normalizationquant.normalize
Remove significant genesremove.sig.genes