AgilentMicroarray (.txt)

Background

    ▪ Agilent microarray data format.
    ▪ File format used for the storage and exchange of microarray data and meta-information.
    ▪ ASCII format.
    ▪ Output format of Agilent Feature Extraction and Agilent Genomic Workbench (AGW) software.
    ▪ Contains three sub-tables, storing the Feature Extraction parameters, microarray-level statistics, and feature-level data.

Import and Export

  • Import["file","AgilentMicroarray"] imports data from any Agilent microarray file.
  • Import["file",{"AgilentMicroarray",elem}] imports the specified element.
  • Import["file",{"AgilentMicroarray",{elem1,elem2,…}}] imports multiple elements.
  • Import["file",{"AgilentMicroarray",elem,subelem}] imports the specified subelement.
  • Import["file",{"AgilentMicroarray",elem,{subelem1,subelem2,…}}] imports multiple subelements.
  • See the reference pages for full general information on Import.
  • ImportString supports the Agilent microarray file format.

Elements

  • General Import elements:
  • "Elements"list of elements and options available in this file
    "Rules"full list of rules for each element and option
  • Common data representation element:
  • "FeatureTable"raw feature table
    "LabeledFeatureTable"feature table as a list of rules
  • Meta-information element:
  • "Header"Feature Extraction parameters given as a list of rules
  • Array-wide statistics element:
  • "Statistics"array-wide statistics given as a list of rules
  • Use Import["file",{"AgilentMicroarray",elem,"Elements"}] to list the subelements available in each of the three main tables ("LabeledFeatureTable", "Header", "Statistics").
  • Import uses the "FeatureTable" element by default.

Examples

open allclose all

Basic Examples  (2)

Import array-wide statistics:

In[1]:=
Click for copyable input
Out[1]//Short=

Import parameters used in the Feature Extraction software:

In[2]:=
Click for copyable input
Out[2]//Short=

List the data available for each feature:

In[1]:=
Click for copyable input
Out[1]//Short=

Import the gene names and log ratio for several features:

In[2]:=
Click for copyable input
Out[2]//TableForm=

Scope  (1)

See Also

"Affymetrix"

Introduced in 2012
(9.0)