| Bioinformatics Toolbox | |
This procedure uses data from a study about gene expression in mouse brains as an example. See Overview of the Mouse Example.
Read data from a file into a MATLAB structure. For example, in the MATLAB Command Window, type
pd = gprread('mouse_a1pd.gpr')
MATLAB displays information about the structure:
pd =
Header: [1x1 struct]
Data: [9504x38 double]
Blocks: [9504x1 double]
Columns: [9504x1 double]
Rows: [9504x1 double]
Names: {9504x1 cell}
IDs: {9504x1 cell}
ColumnNames: {38x1 cell}
Indices: [132x72 double]
Shape: [1x1 struct]
Access the fields of a structure using StructureName.FieldName. For example, you can access the field ColumnNames of the structure pd by typing
pd.ColumnNames
The column names are shown below.
ans =
'X'
'Y'
'Dia.'
'F635 Median'
'F635 Mean'
'F635 SD'
'B635 Median'
'B635 Mean'
'B635 SD'
'% > B635+1SD'
'% > B635+2SD'
'F635 % Sat.'
'F532 Median'
'F532 Mean'
'F532 SD'
'B532 Median'
'B532 Mean'
'B532 SD'
'% > B532+1SD'
'% > B532+2SD'
'F532 % Sat.'
'Ratio of Medians'
'Ratio of Means'
'Median of Ratios'
'Mean of Ratios'
'Ratios SD'
'Rgn Ratio'
'Rgn R²'
'F Pixels'
'B Pixels'
'Sum of Medians'
'Sum of Means'
'Log Ratio'
'F635 Median - B635'
'F532 Median - B532'
'F635 Mean - B635'
'F532 Mean - B532'
'Flags'
Access the names of the genes. For example, to list the first 20 gene names, type
pd.Names(1:20)
A list of the first 20 gene names is displayed:
ans =
'AA467053'
'AA388323'
'AA387625'
'AA474342'
'Myo1b'
'AA473123'
'AA387579'
'AA387314'
'AA467571'
''
'Spop'
'AA547022'
'AI508784'
'AA413555'
'AA414733'
''
'Snta1'
'AI414419'
'W14393'
'W10596'
| | Overview of the Mouse Example | Spatial Images of Microarray Data | |
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