annotationTools: Annotate microarrays and perform cross-species gene expression analyses using flat file databases.
Version 1.50.0

Functions to annotate microarrays, find orthologs, and integrate heterogeneous gene expression profiles using annotation and other molecular biology information available as flat file database (plain text files).

Browse man pages Browse package API and functions Browse package files

AuthorAlexandre Kuhn <alexandre.m.kuhn@gmail.com>
Bioconductor views Annotation Microarray
Date of publicationNone
MaintainerAlexandre Kuhn <alexandre.m.kuhn@gmail.com>
LicenseGPL
Version1.50.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("annotationTools")

Man pages

annot_HGU133A: annot\_HGU133A
compactList: Concatenate list elements
gene_group_part: Example gene_group file
getANNOTATION: General annotation function
getGENEID: Find gene IDs
getGENEONTOLOGY: Find Gene Ontology (GO) annotation
getGENESYMBOL: Find gene symbols
getGENETITLE: Find gene titles
getHOMOLOG: Find homologous/orthologous gene (ID)
getMULTIANNOTATION: General (multiple) annotation function
getOrthologousProbesets: Find orthologous/homologous probe sets present in a target...
getPROBESET: Find probe set IDs
HG-U133_Plus_2_annot_part: Example Affymetrix annotation file
HG-U133_Plus_2_ortholog_part: Example Affymetrix ortholog file
homologene_part: Example HomoloGene file
listToCharacterVector: Turn list into character vector
Mouse430_2_annot_part: Example Affymetrix annotation file
ortho: ortho
ps2ps: Find orthologous/homologous probe sets across two different...
table_human: table\_human
table_mouse: table\_mouse

Functions

HG-U133_Plus_2_annot_part Man page
HG-U133_Plus_2_ortholog_part Man page
Mouse430_2_annot_part Man page
annot_HGU133A Man page
compactList Man page Source code
gene_group_part Man page
getANNOTATION Man page Source code
getGENEID Man page Source code
getGENEONTOLOGY Man page Source code
getGENESYMBOL Man page Source code
getGENETITLE Man page Source code
getHOMOLOG Man page Source code
getMULTIANNOTATION Man page Source code
getOrthologousProbesets Man page Source code
getPROBESET Man page Source code
homologene_part Man page
listToCharacterVector Man page Source code
ortho Man page
ps2ps Man page Source code
table_human Man page
table_mouse Man page

Files

DESCRIPTION
NAMESPACE
R
R/compactList.R
R/getANNOTATION.R
R/getGENEID.R
R/getGENEONTOLOGY.R
R/getGENESYMBOL.R
R/getGENETITLE.R
R/getHOMOLOG.R
R/getMULTIANNOTATION.R
R/getOrthologousProbesets.R
R/getPROBESET.R
R/listToCharacterVector.R
R/ps2ps.R
build
build/vignette.rds
data
data/orthologs_example.RData
inst
inst/CITATION
inst/NEWS.Rd
inst/doc
inst/doc/annotationTools.R
inst/doc/annotationTools.Rnw
inst/doc/annotationTools.pdf
inst/extdata
inst/extdata/HG-U133_Plus_2_annot_part.csv
inst/extdata/HG-U133_Plus_2_ortholog_part.csv
inst/extdata/Mouse430_2_annot_part.csv
inst/extdata/gene_group_part.data
inst/extdata/homologene_part.data
man
man/HG-U133_Plus_2_annot_part.Rd
man/HG-U133_Plus_2_ortholog_part.Rd
man/Mouse430_2_annot_part.Rd
man/annot_HGU133A.Rd
man/compactList.Rd
man/gene_group_part.Rd
man/getANNOTATION.Rd
man/getGENEID.Rd
man/getGENEONTOLOGY.Rd
man/getGENESYMBOL.Rd
man/getGENETITLE.Rd
man/getHOMOLOG.Rd
man/getMULTIANNOTATION.Rd
man/getOrthologousProbesets.Rd
man/getPROBESET.Rd
man/homologene_part.Rd
man/listToCharacterVector.Rd
man/ortho.Rd
man/ps2ps.Rd
man/table_human.Rd
man/table_mouse.Rd
vignettes
vignettes/annotationTools.Rnw
vignettes/annotationTools.bib
annotationTools documentation built on May 20, 2017, 9:19 p.m.