ClueR: Cluster Evaluation
Version 1.2

CLUster Evaluation (CLUE) is a computational method for identifying optimal number of clusters in a given time-course dataset clustered by cmeans or kmeans algorithms and subsequently identify key kinases or pathways from each cluster. Its implementation in R is called ClueR. See Readme on for more details.

AuthorPengyi Yang
Date of publication2017-04-30 07:51:30 UTC
MaintainerPengyi Yang <pengyi.yang@sydney.edu.au>
LicenseGPL-3
Version1.2
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("ClueR")

Getting started

Package overview
README.md

Popular man pages

ClueR-package: CLUster Evaluation R package
clustOptimal: Generate optimal clustering
enrichmentTest: Fisher's exact test-based enrichment test
hES: Human embryonic stem cell phosphoproteomics data
Pathways.reactome: Reactome pathway annotations
PhosphoSite.human: PhosphoSitePlus annotations for human
PhosphoSite.mouse: PhosphoSitePlus annotations for mouse
See all...

All man pages Function index File listing

Man pages

ClueR-package: CLUster Evaluation R package
clustEnrichment: Cluster enrichment test
clustOptimal: Generate optimal clustering
enrichmentTest: Fisher's exact test-based enrichment test
fuzzPlot: Visualize fuzzy clustering results
hES: Human embryonic stem cell phosphoproteomics data
Pathways.biocarta: Biocarta pathway annotations
Pathways.DAVID: DAVID pathway annotations
Pathways.KEGG: KEGG pathway annotations
Pathways.reactome: Reactome pathway annotations
PhosphoELM.human: Phospho.ELM annotations for human
PhosphoELM.mouse: Phospho.ELM annotations for mouse
PhosphoSite.human: PhosphoSitePlus annotations for human
PhosphoSite.mouse: PhosphoSitePlus annotations for mouse
runClue: Run CLUster Evaluation
temporalSimu: Temporal data simulation

Functions

CLUE Man page
ClueR-package Man page
Pathways.DAVID Man page
Pathways.KEGG Man page
Pathways.biocarta Man page
Pathways.reactome Man page
PhosphoELM.human Man page
PhosphoELM.mouse Man page
PhosphoSite.human Man page
PhosphoSite.mouse Man page
clustEnrichment Man page Source code
clustOptimal Man page Source code
enrichmentTest Man page Source code
fuzzPlot Man page Source code
hES Man page
runClue Man page Source code
temporalSimu Man page Source code

Files

NAMESPACE
data
data/Pathways.rda
data/PhosphoELM.rda
data/hES.rda
data/datalist
data/PhosphoSite.rda
R
R/temporalSimu.R
R/runClue.R
R/enrichmentTest.R
R/clustEnrichment.R
R/fuzzPlot.R
R/clustOptimal.R
README.md
MD5
DESCRIPTION
man
man/PhosphoELM.human.Rd
man/hES.Rd
man/Pathways.KEGG.Rd
man/Pathways.biocarta.Rd
man/enrichmentTest.Rd
man/clustOptimal.Rd
man/Pathways.DAVID.Rd
man/runClue.Rd
man/Pathways.reactome.Rd
man/PhosphoSite.human.Rd
man/PhosphoSite.mouse.Rd
man/clustEnrichment.Rd
man/fuzzPlot.Rd
man/temporalSimu.Rd
man/PhosphoELM.mouse.Rd
man/ClueR-package.Rd
ClueR documentation built on May 19, 2017, 1:34 p.m.

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