zzz-NetAffxCompatibility-class: (Auto-generated) classes and methods for navigating NetAffx...

Description Objects from the Class Slots Extends Methods Author(s) See Also Examples

Description

These classes and methods facilitate navigation of the NetAffx resource data base. They are R representations of the Affymetrix classes defined in NetAffxAnnotFileList.dtd. The 'show' methods for these classs indicate how objects are to be accessed; details are in the ‘Annotations with NetAffx’ vignette.

The auto-generated classes are discoverable as indicated in the example below.

Objects from the Class

Objects are created internally, by parsing XML retrieved from the local NetAffx data base or from the Affymetrix web site.

Slots

Objects have a variety of slots. To discover slot names and content type, see the slotNames portion of the example, below.

Extends

Class "NetAffxCompatibility", directly. Class "AffyCompatible", by class "NetAffxCompatibility", distance 2.

Methods

'Read' methods are defined on auto-generated classes to access slot content.

Accessors are apparent from displaying the object; each line of the display is of the form accessor: content. To retrieve the content of an instance object, invoke accessor(object).

Some objects contains several instances of another object. These 'typed associations' are represented by the .TypedAssociation class, and are navigated or subset as one would a standard R vector, e.g., using [, [[. A useful paradigm for displaying all instances is illustrated on the NetAffxResource page.

Author(s)

Martin Morgan <[email protected]>

See Also

Vignette ‘Annotations with NetAffx’. Affymetrix user login site https://www.affymetrix.com/site/login/login.affx.

NetAffxResource for creating and managing the NetAffx data base.

NetAffxResource for navigating the data base.

Examples

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## defined and auto-generated classes
getClass("NetAffxCompatibility", where=getNamespace("AffyCompatible"))

## slots of an auto-generated class
getSlots(getClass("AffxNetAffxAnnotFileList",
    where=getNamespace("AffyCompatible")))

## Not run: 
example("NetAffxrResource-class")

## End(Not run)

AffyCompatible documentation built on Nov. 1, 2018, 2:24 a.m.