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

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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).

Author
Alexandre Kuhn <alexandre.m.kuhn@gmail.com>
Date of publication
None
Maintainer
Alexandre Kuhn <alexandre.m.kuhn@gmail.com>
License
GPL
Version
1.48.0

View on Bioconductor

Man pages

annot_HGU133A
annot\_HGU133A
compactList
Concatenate list elements
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

Files in this package

annotationTools/DESCRIPTION
annotationTools/NAMESPACE
annotationTools/R
annotationTools/R/compactList.R
annotationTools/R/getANNOTATION.R
annotationTools/R/getGENEID.R
annotationTools/R/getGENEONTOLOGY.R
annotationTools/R/getGENESYMBOL.R
annotationTools/R/getGENETITLE.R
annotationTools/R/getHOMOLOG.R
annotationTools/R/getMULTIANNOTATION.R
annotationTools/R/getOrthologousProbesets.R
annotationTools/R/getPROBESET.R
annotationTools/R/listToCharacterVector.R
annotationTools/R/ps2ps.R
annotationTools/R/zzz.R
annotationTools/build
annotationTools/build/vignette.rds
annotationTools/data
annotationTools/data/orthologs_example.RData
annotationTools/inst
annotationTools/inst/CITATION
annotationTools/inst/doc
annotationTools/inst/doc/annotationTools.R
annotationTools/inst/doc/annotationTools.Rnw
annotationTools/inst/doc/annotationTools.pdf
annotationTools/inst/extdata
annotationTools/inst/extdata/HG-U133_Plus_2_annot_part.csv
annotationTools/inst/extdata/HG-U133_Plus_2_ortholog_part.csv
annotationTools/inst/extdata/Mouse430_2_annot_part.csv
annotationTools/inst/extdata/homologene_part.data
annotationTools/man
annotationTools/man/HG-U133_Plus_2_annot_part.Rd
annotationTools/man/HG-U133_Plus_2_ortholog_part.Rd
annotationTools/man/Mouse430_2_annot_part.Rd
annotationTools/man/annot_HGU133A.Rd
annotationTools/man/compactList.Rd
annotationTools/man/getANNOTATION.Rd
annotationTools/man/getGENEID.Rd
annotationTools/man/getGENEONTOLOGY.Rd
annotationTools/man/getGENESYMBOL.Rd
annotationTools/man/getGENETITLE.Rd
annotationTools/man/getHOMOLOG.Rd
annotationTools/man/getMULTIANNOTATION.Rd
annotationTools/man/getOrthologousProbesets.Rd
annotationTools/man/getPROBESET.Rd
annotationTools/man/homologene_part.Rd
annotationTools/man/listToCharacterVector.Rd
annotationTools/man/ortho.Rd
annotationTools/man/ps2ps.Rd
annotationTools/man/table_human.Rd
annotationTools/man/table_mouse.Rd
annotationTools/vignettes
annotationTools/vignettes/annotationTools.Rnw
annotationTools/vignettes/annotationTools.bib