FunCluster: Functional Profiling of Microarray Expression Data

FunCluster performs a functional analysis of microarray expression data based on Gene Ontology & KEGG functional annotations. From expression data and functional annotations FunCluster builds classes of putatively co-regulated biological processes through a specially designed clustering procedure.

AuthorCorneliu Henegar <corneliu@henegar.info>
Date of publication2012-07-23 10:35:30
MaintainerCorneliu Henegar <corneliu@henegar.info>
LicenseGPL (>= 2)
Version1.09
http://corneliu.henegar.info/FunCluster.htm

View on CRAN

Man pages

adipose: Gene Expression in Human White Adipose Tissue

annotate: Internal routine or variable

AnnotationIndirecte: Internal routine or variable

Annotations: Functional Profiling of Microarray RNA Expression Data

annot.date: Internal routine or variable

annot.list: Internal routine or variable

ChargerKegg: Internal routine or variable

cluster.c: Internal routine or variable

clusterm.cc: Internal routine or variable

clusterm.cs: Internal routine or variable

down: Internal routine or variable

fdr: Internal routine or variable

fdr.adjust: Internal routine or variable

fdr.basic: Internal routine or variable

fdr.master: Internal routine or variable

filter.genes: Internal routine or variable

FunCluster: Functional Profiling of Microarray Expression Data

FunCluster.R-package: Functional Profiling of Microarray Expression Data

f.version: Internal routine or variable

gene.correl: Internal routine or variable

GeneInfo: Internal routine or variable

GeneInfoSC: Internal routine or variable

genes.lst: Internal routine or variable

goAndLL: Internal routine or variable

GO.terms.hierarchy: Internal routine or variable

GO.terms.name: Internal routine or variable

HS.GO.DIR.BP.file.annot: Internal routine or variable

HS.GO.DIR.CC.file.annot: Internal routine or variable

HS.GO.DIR.MF.file.annot: Internal routine or variable

HS.GO.IND.BP.file.annot: Internal routine or variable

HS.GO.IND.CC.file.annot: Internal routine or variable

HS.GO.IND.MF.file.annot: Internal routine or variable

HS.KEGG.file.annot: Internal routine or variable

HS.locus.cyto: Internal routine or variable

HS.locus.name: Internal routine or variable

insulin: Insulin Coordinated Regulation of Gene Expression in Human...

Kegg: Internal routine or variable

KEGG.terms.name: Internal routine or variable

location.analysis: Internal routine or variable

main.loop: Internal routine or variable

MakeCorrespondanceLLGO: Internal routine or variable

MakeGoHierarchy: Internal routine or variable

MakeGoTerms: Internal routine or variable

MakeLocusNames: Internal routine or variable

MiseEnFormeKegg: Internal routine or variable

MiseEnFormeKeggSC: Internal routine or variable

MM.GO.DIR.BP.file.annot: Internal routine or variable

MM.GO.DIR.CC.file.annot: Internal routine or variable

MM.GO.DIR.MF.file.annot: Internal routine or variable

MM.GO.IND.BP.file.annot: Internal routine or variable

MM.GO.IND.CC.file.annot: Internal routine or variable

MM.GO.IND.MF.file.annot: Internal routine or variable

MM.KEGG.file.annot: Internal routine or variable

MM.locus.cyto: Internal routine or variable

MM.locus.name: Internal routine or variable

pclust: Internal routine or variable

preliminary: Internal routine or variable

prop.alt: Internal routine or variable

pterm: Internal routine or variable

pvalues: Internal routine or variable

ref.list: Internal routine or variable

resclust: Internal routine or variable

resterm: Internal routine or variable

SC.GO.DIR.BP.file.annot: Internal routine or variable

SC.GO.DIR.CC.file.annot: Internal routine or variable

SC.GO.DIR.MF.file.annot: Internal routine or variable

SC.GO.IND.BP.file.annot: Internal routine or variable

SC.GO.IND.CC.file.annot: Internal routine or variable

SC.GO.IND.MF.file.annot: Internal routine or variable

SC.KEGG.file.annot: Internal routine or variable

SC.locus.cyto: Internal routine or variable

SC.locus.name: Internal routine or variable

storey: Internal routine or variable

term.compare: Internal routine or variable

TroisiemeFiltrage: Internal routine or variable

up: Internal routine or variable

Functions

adipose Man page
annotate Man page
AnnotationIndirecte Man page
annotations Man page
annot.date Man page
annot.list Man page
ChargerKegg Man page
cluster.c Man page
clusterm.cc Man page
clusterm.cs Man page
down Man page
fdr Man page
fdr.adjust Man page
fdr.basic Man page
fdr.master Man page
filter.genes Man page
FunCluster Man page
FunCluster.R-package Man page
f.version Man page
gene.correl Man page
GeneInfo Man page
GeneInfoSC Man page
genes.lst Man page
goAndLL Man page
GO.terms.hierarchy Man page
GO.terms.name Man page
HS.GO.DIR.BP.file.annot Man page
HS.GO.DIR.CC.file.annot Man page
HS.GO.DIR.MF.file.annot Man page
HS.GO.IND.BP.file.annot Man page
HS.GO.IND.CC.file.annot Man page
HS.GO.IND.MF.file.annot Man page
HS.KEGG.file.annot Man page
HS.locus.cyto Man page
HS.locus.name Man page
insulin Man page
Kegg Man page
KEGG.terms.name Man page
location.analysis Man page
main.loop Man page
MakeCorrespondanceLLGO Man page
MakeGoHierarchy Man page
MakeGoTerms Man page
MakeLocusNames Man page
MiseEnFormeKegg Man page
MiseEnFormeKeggSC Man page
MM.GO.DIR.BP.file.annot Man page
MM.GO.DIR.CC.file.annot Man page
MM.GO.DIR.MF.file.annot Man page
MM.GO.IND.BP.file.annot Man page
MM.GO.IND.CC.file.annot Man page
MM.GO.IND.MF.file.annot Man page
MM.KEGG.file.annot Man page
MM.locus.cyto Man page
MM.locus.name Man page
pclust Man page
preliminary Man page
prop.alt Man page
pterm Man page
pvalues Man page
ref.list Man page
resclust Man page
resterm Man page
SC.GO.DIR.BP.file.annot Man page
SC.GO.DIR.CC.file.annot Man page
SC.GO.DIR.MF.file.annot Man page
SC.GO.IND.BP.file.annot Man page
SC.GO.IND.CC.file.annot Man page
SC.GO.IND.MF.file.annot Man page
SC.KEGG.file.annot Man page
SC.locus.cyto Man page
SC.locus.name Man page
storey Man page
term.compare Man page
TroisiemeFiltrage Man page
up Man page

Files

FunCluster
FunCluster/MD5
FunCluster/R
FunCluster/R/FunCluster.R FunCluster/R/Annotations.R
FunCluster/R/sysdata.rda
FunCluster/copying
FunCluster/man
FunCluster/man/SC.GO.DIR.BP.file.annot.Rd FunCluster/man/HS.locus.name.Rd FunCluster/man/storey.Rd FunCluster/man/annotate.Rd FunCluster/man/MM.GO.IND.BP.file.annot.Rd FunCluster/man/FunCluster.R-package.Rd FunCluster/man/MakeGoTerms.Rd FunCluster/man/MM.GO.DIR.BP.file.annot.Rd FunCluster/man/gene.correl.Rd FunCluster/man/HS.GO.DIR.BP.file.annot.Rd FunCluster/man/pterm.Rd FunCluster/man/HS.GO.IND.BP.file.annot.Rd FunCluster/man/pclust.Rd FunCluster/man/SC.locus.name.Rd FunCluster/man/AnnotationIndirecte.Rd FunCluster/man/MakeGoHierarchy.Rd FunCluster/man/adipose.Rd FunCluster/man/SC.KEGG.file.annot.Rd FunCluster/man/KEGG.terms.name.Rd FunCluster/man/Annotations.Rd FunCluster/man/MM.GO.DIR.CC.file.annot.Rd FunCluster/man/GO.terms.name.Rd FunCluster/man/HS.KEGG.file.annot.Rd FunCluster/man/MiseEnFormeKeggSC.Rd FunCluster/man/MakeCorrespondanceLLGO.Rd FunCluster/man/SC.GO.IND.MF.file.annot.Rd FunCluster/man/main.loop.Rd FunCluster/man/prop.alt.Rd FunCluster/man/annot.date.Rd FunCluster/man/resclust.Rd FunCluster/man/HS.locus.cyto.Rd FunCluster/man/MM.GO.DIR.MF.file.annot.Rd FunCluster/man/fdr.master.Rd FunCluster/man/Kegg.Rd FunCluster/man/TroisiemeFiltrage.Rd FunCluster/man/MM.locus.cyto.Rd FunCluster/man/pvalues.Rd FunCluster/man/annot.list.Rd FunCluster/man/term.compare.Rd FunCluster/man/up.Rd FunCluster/man/SC.GO.IND.BP.file.annot.Rd FunCluster/man/MakeLocusNames.Rd FunCluster/man/FunCluster.Rd FunCluster/man/HS.GO.IND.MF.file.annot.Rd FunCluster/man/MiseEnFormeKegg.Rd FunCluster/man/GeneInfoSC.Rd FunCluster/man/MM.GO.IND.MF.file.annot.Rd FunCluster/man/fdr.basic.Rd FunCluster/man/fdr.adjust.Rd FunCluster/man/HS.GO.IND.CC.file.annot.Rd FunCluster/man/MM.KEGG.file.annot.Rd FunCluster/man/ChargerKegg.Rd FunCluster/man/filter.genes.Rd FunCluster/man/goAndLL.Rd FunCluster/man/SC.locus.cyto.Rd FunCluster/man/ref.list.Rd FunCluster/man/HS.GO.DIR.CC.file.annot.Rd FunCluster/man/clusterm.cs.Rd FunCluster/man/GO.terms.hierarchy.Rd FunCluster/man/preliminary.Rd FunCluster/man/MM.locus.name.Rd FunCluster/man/resterm.Rd FunCluster/man/clusterm.cc.Rd FunCluster/man/MM.GO.IND.CC.file.annot.Rd FunCluster/man/SC.GO.DIR.MF.file.annot.Rd FunCluster/man/SC.GO.DIR.CC.file.annot.Rd FunCluster/man/fdr.Rd FunCluster/man/insulin.Rd FunCluster/man/f.version.Rd FunCluster/man/genes.lst.Rd FunCluster/man/down.Rd FunCluster/man/location.analysis.Rd FunCluster/man/cluster.c.Rd FunCluster/man/HS.GO.DIR.MF.file.annot.Rd FunCluster/man/SC.GO.IND.CC.file.annot.Rd FunCluster/man/GeneInfo.Rd
FunCluster/NAMESPACE
FunCluster/DESCRIPTION
FunCluster/data
FunCluster/data/adipose.rda
FunCluster/data/insulin.rda

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.