Create Custom Scan Settings

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By default, scan settings are automatically selected based on the BeadChip type. To use scan settings other than the defaults, create a custom scan settings file and associate the file with the BeadChip on the iScan Control Software Setup screen.

1. From the menu in the upper left corner of the screen, select Tools, and then select Options.
2. In the Options dialog box, select the Scan Settings tab.
3. Highlight the scan setting that most closely resembles the custom scan setting that you want to create, and then select Copy.

The new scan setting displays at the bottom of the scan settings list.

4. With the new scan setting highlighted, edit one or more of the settings listed in the following table. Settings not listed in the table cannot be changed.
5. Select OK.

Setting Type

Setting

Value

Analysis

Enable Analysis

Set to True or False
 

Include Outliers

Set to True or False

Misc (Miscellaneous)

Name

Enter a new name for the custom scan settings file.

Output

Export Bead Data

Set to True or False
 

Export Bead Type Data

Set to True or False
 

Image Format

Select JPG, PNG, or TIFF.

JPG and PNG files are compressed image files. They are useful for reviewing the array surface for defects that might have affected data quality. Intensity data cannot be extracted from JPG or PNG files. TIFF files are uncompressed image files. They consume more hard drive space than JPGs or PNGs, but intensity data can be extracted from TIFF files.
 

Include XY in Bead Data

Set to True or False
 

JPG Quality

If you selected JPG as the Image Format, set this value between 5 and 100. The lower the number, the greater the image compression.
 

Save Images

Set to True or False.

Select False to conserve disk space or prevent large data files from traveling over your network.
1. On the iCS Setup screen, select Settings at the end of the row of the BeadChip to be changed.
2. In the Open Scan Setting File dialog box, select the custom scan settings file you created, and then select Open.
3. When prompted, select OK.