readArr: Read ARR sample attribute files

In AffyCompatible: Affymetrix GeneChip software compatibility

Description

This functions reads the content of Affymetrix ARR sample attribute files created by GeneChip(R) Command Console. Objects are represented as R classes. Navigation and extraction of data are described in the vignette ‘Retrieving MAGE and ARR sample attributes’.

Usage

readArr(fls, ...)

Arguments

fls	A character vector containing the paths to files to be read.
...	Additional arguments, currently unused.

Value

An object or list of objects of class ArrayFileSet, depending on whether one or several file paths are provided.

Author(s)

Martin Morgan

See Also

The vignette ‘Retrieving MAGE and ARR sample attributes’ for detailed illustration of use.

xclass and readXml for advanced access methods.

Examples

dir <- system.file("extdata", "ARR", package="AffyCompatible")
fls <- list.files(dir, full=TRUE)
readArr(fls[[1]])
readArr(fls)

Example output

Loading required package: XML
Loading required package: RCurl
Loading required package: bitops
type: affymetrix-calvin-arraysetfile 
createdStep: Other 
createdBy:  
createdDateTime:  
originalProjectName:  
guid: 72f5f761-187b-44c9-81d9-b150b118909d 
version: 1.0 
physicalArrays: PhysicalArrays(1)
userAttributes: UserAttributes(1)
$`/usr/local/lib/R/site-library/AffyCompatible/extdata/ARR/TisMap_Brain_01_v1_WTGene1.ARR`
type: affymetrix-calvin-arraysetfile 
createdStep: Other 
createdBy:  
createdDateTime:  
originalProjectName:  
guid: 72f5f761-187b-44c9-81d9-b150b118909d 
version: 1.0 
physicalArrays: PhysicalArrays(1)
userAttributes: UserAttributes(1)

$`/usr/local/lib/R/site-library/AffyCompatible/extdata/ARR/TisMap_Breast_01_v1_WTGene1.ARR`
type: affymetrix-calvin-arraysetfile 
createdStep: Other 
createdBy:  
createdDateTime:  
originalProjectName:  
guid: d42177d6-b298-4335-b4b4-e434a9b7e3a2 
version: 1.0 
physicalArrays: PhysicalArrays(1)
userAttributes: UserAttributes(1)

$`/usr/local/lib/R/site-library/AffyCompatible/extdata/ARR/TisMap_Heart_01_v1_WTGene1.ARR`
type: affymetrix-calvin-arraysetfile 
createdStep: Other 
createdBy:  
createdDateTime:  
originalProjectName:  
guid: 92c3b09b-66a1-4581-910f-ead15d6916b1 
version: 1.0 
physicalArrays: PhysicalArrays(1)
userAttributes: UserAttributes(1)

$`/usr/local/lib/R/site-library/AffyCompatible/extdata/ARR/TisMap_Kidney_01_v1_WTGene1.ARR`
type: affymetrix-calvin-arraysetfile 
createdStep: Other 
createdBy:  
createdDateTime:  
originalProjectName:  
guid: 6bad4d75-80cf-4dbd-8069-2cd1c6cb644a 
version: 1.0 
physicalArrays: PhysicalArrays(1)
userAttributes: UserAttributes(1)

AffyCompatible documentation built on Nov. 8, 2020, 8:15 p.m.