Package: HEM 1.77.0

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_1.77.0.tar.gz
HEM_1.77.0.zip(r-4.5)HEM_1.77.0.zip(r-4.4)HEM_1.77.0.zip(r-4.3)
HEM_1.77.0.tgz(r-4.4-arm64)HEM_1.77.0.tgz(r-4.4-x86_64)HEM_1.77.0.tgz(r-4.3-arm64)HEM_1.77.0.tgz(r-4.3-x86_64)
HEM_1.77.0.tar.gz(r-4.5-noble)HEM_1.77.0.tar.gz(r-4.4-noble)
HEM_1.77.0.tgz(r-4.4-emscripten)HEM_1.77.0.tgz(r-4.3-emscripten)
HEM.pdf |HEM.html✨
HEM/json (API)

# Install 'HEM' in R:
install.packages('HEM', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • mubcp - Gene expression data for mouse B cell development
  • pbrain - Gene expression data for primate brains

On BioConductor:HEM-1.77.0(bioc 3.20)HEM-1.76.0(bioc 3.19)

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

bioconductor-package

27 exports 3.82 score 2 dependencies 27 mentions

Last updated 2 months agofrom:6f42f42fd3

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:BiobaseBiocGenerics

HEM Overview

Rendered fromHEM.Rnwusingutils::Sweaveon Jul 03 2024.

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