AffyCompatible: Affymetrix GeneChip software compatibility

This package provides an interface to Affymetrix chip annotation and sample attribute files. The package allows an easy way for users to download and manage local data bases of Affynmetrix NetAffx annotation files. The package also provides access to GeneChip Operating System (GCOS) and GeneChip Command Console (AGCC)-compatible sample annotation files.

Author
Martin Morgan, Robert Gentleman
Date of publication
None
Maintainer
Martin Morgan <martin.morgan@roswellpark.org>
License
Artistic-2.0
Version
1.34.0

View on Bioconductor

Man pages

accessors-NetAffxResource
Access NetAffxResource-class content
AffyCompatible-class
Virtual classes defining the "AffyCompatibility" hierarchy
AffyCompatible-package
Affymetrix chip annotation and sample attribute management
NetAffxResource
Create and access a NetAffxResource database
NetAffxResource-class
Manage NetAffx annotations
readArr
Read ARR sample attribute files
readMage
Read DTT (MAGE) sample attribute files
readNetAffx
Update or read a NetAffx data base
readXml
(Advanced) Read XML files of Affymetrix sample attriubtes or...
xclass
(Advanced) Construct R objects from XML document queries
zzz
Additional functions defined in AffyCompatible
zzz-ARRCompatibility-class
(Auto-generated) classes and methods for navigating ARR...
zzz-DTTCompatibility-class
(Auto-generated) classes and methods for navigating DTT...
zzz-NetAffxCompatibility-class
(Auto-generated) classes and methods for navigating NetAffx...
zzz-.TypedAssociation-class
(Internal) Represent 'typed associations' from XML documents

Files in this package

AffyCompatible/DESCRIPTION
AffyCompatible/NAMESPACE
AffyCompatible/R
AffyCompatible/R/AAA.R
AffyCompatible/R/DataClasses.R
AffyCompatible/R/functions-xml.R
AffyCompatible/R/methods-.TypedAssociation.R
AffyCompatible/R/methods-AffyCompatible.R
AffyCompatible/R/methods-NetAffxResource.R
AffyCompatible/R/sysdata.rda
AffyCompatible/R/zzz.R
AffyCompatible/build
AffyCompatible/build/vignette.rds
AffyCompatible/inst
AffyCompatible/inst/doc
AffyCompatible/inst/doc/MAGEAndARR.R
AffyCompatible/inst/doc/MAGEAndARR.Rnw
AffyCompatible/inst/doc/MAGEAndARR.pdf
AffyCompatible/inst/doc/NetAffxResource.R
AffyCompatible/inst/doc/NetAffxResource.Rnw
AffyCompatible/inst/doc/NetAffxResource.pdf
AffyCompatible/inst/extdata
AffyCompatible/inst/extdata/ARR
AffyCompatible/inst/extdata/ARR/TisMap_Brain_01_v1_WTGene1.ARR
AffyCompatible/inst/extdata/ARR/TisMap_Breast_01_v1_WTGene1.ARR
AffyCompatible/inst/extdata/ARR/TisMap_Heart_01_v1_WTGene1.ARR
AffyCompatible/inst/extdata/ARR/TisMap_Kidney_01_v1_WTGene1.ARR
AffyCompatible/inst/extdata/ArraySetAndTemplateFile.dtd
AffyCompatible/inst/extdata/DTT
AffyCompatible/inst/extdata/DTT/MPRO_0hr_A.xml
AffyCompatible/inst/extdata/DTT/Sample_1_Wash_Stain_Param.xml
AffyCompatible/inst/extdata/DTT/Sample_2_4C_Scan.xml
AffyCompatible/inst/extdata/MAGE-ML.dtd
AffyCompatible/inst/extdata/NetAffxAnnotFileList.dtd
AffyCompatible/man
AffyCompatible/man/AffyCompatible-class.Rd
AffyCompatible/man/AffyCompatible-package.Rd
AffyCompatible/man/NetAffxResource-class.Rd
AffyCompatible/man/NetAffxResource.Rd
AffyCompatible/man/accessors-NetAffxResource.Rd
AffyCompatible/man/readArr.Rd
AffyCompatible/man/readMage.Rd
AffyCompatible/man/readNetAffx.Rd
AffyCompatible/man/readXml.Rd
AffyCompatible/man/xclass.Rd
AffyCompatible/man/zzz-.TypedAssociation-class.Rd
AffyCompatible/man/zzz-ARRCompatibility-class.Rd
AffyCompatible/man/zzz-DTTCompatibility-class.Rd
AffyCompatible/man/zzz-NetAffxCompatibility-class.Rd
AffyCompatible/man/zzz.Rd
AffyCompatible/vignettes
AffyCompatible/vignettes/MAGEAndARR.Rnw
AffyCompatible/vignettes/NetAffxResource.Rnw