Bioinformatics Toolbox™

agferead - Read Agilent^® Feature Extraction Software file

Syntax

AGFEData = agferead(File)

Arguments

Description

AGFEData = agferead(File) reads files generated with the Feature Extraction Software from Agilent microarray scanners and creates a structure (AGFEData) containing the following fields:

• Header

• Stats

• Columns

• Rows

• Names

• IDs

• Data

• ColumnNames

• TextData

• TextColumnNames

The Feature Extraction Software takes an image from an Agilent microarray scanner and generates raw intensity data for each spot on the plate. For more information about this software, see:

http://www.chem.agilent.com/scripts/pds.asp?lpage=2547

Examples

1. Read in a sample Agilent Feature Extraction Software file. Note that the file fe_sample.txt is not provided with the Bioinformatics Toolbox™ software.

   agfeStruct = agferead('fe_sample.txt')

2. Plot the median foreground.

   maimage(agfeStruct,'gMedianSignal');
   maboxplot(agfeStruct,'gMedianSignal');

See Also

Bioinformatics Toolbox functions: affyread, celintensityread, galread, geosoftread, gprread, ilmnbsread, imageneread, magetfield, sptread

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