Bioinformatics Toolbox™

gprread - Read microarray data from GenePix^® Results (GPR) file

Syntax

GPRData = gprread('File')

gprread(..., 'PropertyName', PropertyValue,...)
gprread(..., 'CleanColNames', CleanColNamesValue)

Arguments

Description

GPRData = gprread('File') reads GenePix results data from File and creates a MATLAB^® structure (GPRData) with the following fields.

gprread(..., 'PropertyName', PropertyValue,...) defines optional properties using property name/value pairs.

gprread(..., 'CleanColNames', CleanColNamesValue) controls the creation of column names that can be used as variable names. A GPR file may contain column names with spaces and some characters that the MATLAB software cannot use in MATLAB variable names. If CleanColNamesValue is true, gprread returns names in the field ColumnNames that are valid MATLAB variable names and names that you can use in functions. By default, CleanColNamesValue is false and the field ColumnNames may contain characters that are invalid for MATLAB variable names.

The field Indices of the structure contains indices that can be used for plotting heat maps of the data.

For more details on the GPR format, see

http://www.moleculardevices.com/pages/software/gn_genepix_file_formats.html#gpr 

http://www.moleculardevices.com/pages/software/gn_gpr_format_history.html

For a list of supported file format versions, see

http://www.moleculardevices.com/pages/software/gn_genepix_file_formats.html

Examples

% Read in a sample GPR file and plot the median foreground
% intensity for the 635 nm channel. 
gprStruct = gprread('mouse_a1pd.gpr')
maimage(gprStruct,'F635 Median');
 
% Alternatively you can create a similar plot using 
% more basic graphics commands.
F635Median = magetfield(gprStruct,'F635 Median');
imagesc(F635Median(gprStruct.Indices));
colormap bone
colorbar;

See Also

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

gonnet

graphallshortestpaths