Microtek ScanWizard Bio User manual

Reference Manual

ii
Copyright 2013 by Microtek International, Inc.
All rights reserved.
Trademarks
Microtek, ScanMaker, ArtixScan, ScanWizard and ColoRescue are trademarks or registered
trademarks of Microtek International, Inc. Adobe and Acrobat are registered trademarks of
Adobe Systems Incorporated. Windows is a registered trademark of Microsoft Corporation.
All other trademarks or registered trademarks are the property of their respective holders.
Software function or specifications are subject to change without notice. Not responsible
for typographical errors.
Important
Documents that you scan may be protected under copyright law. The unauthorized use of
such documents could be a violation of the rights of the copyright holder. Microtek bears
no responsibility for the unauthorized use of copyrighted materials.
To obtain optimal results from the Microtek scanning software and user's manual, you
should be familiar with such Windows concepts as pointing, clicking, dragging, and
selecting from menus and dialog boxed. If these things are new to you, refer to your
Microsoft Windows User's Guide.
I49-004656 C
June 2013
Microtek International, Inc.
6, Industry East Road 3, Science Based Industrial Park, Hsinchu, 30077, Taiwan
Tel: [phone], Fax: [phone], http://www.microtek.com

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Contents
Introduction ................................................................................... 1
The ScanWizard Bio Interface ....................................................................2
Launching the ScanWizard Bio ..................................................................3
Exiting ScanWizard Bio ..............................................................................3
The Preview Window..................................................................... 4
Elements of the Preview Window ...............................................................4
Preview Area .............................................................................................6
Scan Material .............................................................................................7
Unit of Measurement/Rulers ......................................................................8
Overview, Prescan, and Scan to ..................................................................9
Overview ............................................................................................9
Prescan ..............................................................................................9
Scan to ...............................................................................................9
Copy ................................................................................................10
E-mail ...............................................................................................10
Toolbar ................................................................................................... 11
Scan Frame (Frame) ..........................................................................11
Zoom (Magnify Glass) ...................................................................... 11
Move (Pan) ...................................................................................... 11
White/Black Points Pickers ...............................................................12
Auto Focus .......................................................................................13
The Scanner Menu ...................................................................................15
Scanner Model .................................................................................15
Get Current Scanner Info..................................................................15
Scanner Control (Power Saving Control) ...........................................16
Scanner Probe ..................................................................................16
The View Menu....................................................................................... 17
Overview Image/Preview Image ....................................................... 17
Resize Window to Fit ....................................................................... 18
Bring Settings Window to Front ....................................................... 18
Show/Hide Windows........................................................................ 18

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The Preferences Menu .............................................................................19
Scan Material ................................................................................... 19
Calibration Setup ..............................................................................20
White/Black Points Setup ................................................................. 22
Cursor Auxiliary Lines...................................................................... 23
Overview Setup ................................................................................24
Prescan Setup ...................................................................................26
Monitor Gamma Setup ..................................................................... 27
Invert .............................................................................................. 27
More... command ............................................................................ 28
The Correction Menu ..............................................................................31
The Help Menu ....................................................................................... 31
The Settings Window................................................................... 32
Elements of the Settings Window .............................................................32
Scan Job ..................................................................................................34
Image Type ..............................................................................................35
Resolution Settings ...................................................................................36
Resolution List Box ...........................................................................36
Resolution Unit .................................................................................37
Scan Frame and Related Settings ............................................................. 38
Scan Frame Settings ..........................................................................38
Scaling ..............................................................................................38
Output Settings.................................................................................39
Image Size ........................................................................................39
Unit of Measurement ........................................................................39
Multiple Sampling ....................................................................................40
Transform................................................................................................41
The Reset button......................................................................................41
Advanced Image Correction Tools ............................................... 42
Accessing the AIC Tools ..........................................................................43
Elements of AIC Dialog Box ......................................................................44
The Action Buttons ..................................................................................46
Custom Settings .......................................................................................47
Adding Custom Settings ....................................................................47
Removing Custom Settings ................................................................48
Loading/retrieving custom settings ....................................................48

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White/Black Points ................................................................................. 49
Tone Curve ............................................................................................. 52
Brightness and Contrast .......................................................................... 56
Exposure Time (for Transmissive mode only) ........................................... 57
Automatic Color Restoration ....................................................................58
The Information Window ............................................................ 59
Elements of the Information Window .......................................................59
Zoom Level Display ................................................................................ 60
Mouse Cursor Position ............................................................................60
Color Output Meter.................................................................................60
Sample Display Area ............................................................................... 61
Color Meter Options ...............................................................................61
The Scan Job Queue Window ...................................................... 62
Elements of the Scan Job Queue window .................................................62
One-pass Scan for Multiple Scan Jobs ......................................................64
Multiple Auto-crop for EZ-Lock Film Holder ............................................65
Function Buttons .....................................................................................66
Selecting Multiple Scan Jobs ..............................................................66
Editing Multiple Scan Jobs .................................................................66
Adding a New Scan Job .....................................................................67
Duplicating a Scan Job ......................................................................67
Removing a Scan Job .........................................................................67
Checking a Scan Job .........................................................................68
The Up/Down Arrows .......................................................................68
The Load/Save Button .......................................................................69
Appendix
Product and Technical Support ................................................................71

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Microtek ScanWizard Bio Reference Manual 1
Introduction
The ScanWizard Bio is a scanning software which is specifically designed for the
use of the electrophoresis gel scanning. This manual covers the various
commands and features found in the ScanWizard Bio scanning software for the
Windows system. The manual information is divided into four major sections,
corresponding to the four major windows of the program:
• Preview
• Settings
• Information
• Scan Job Queue

2 Microtek ScanWizard Bio Reference Manual
The ScanWizard Bio Interface
ScanWizard Bio consists of four major windows: Preview, Settings, Information,
and Scan Job Queue.
All four windows appear automatically after ScanWizard Bio is started up the
first time. You may hide or show the Scan Job Queue and Information windows
by clicking on the Hide/Show toggle commands in the View menu of the Preview
window.
Settings
window
contains
scanning
parameters for
outputting the
imageand
includes image
correction tools
Information window
provides information on
the Preview image
Scan Job
window
provides key
functions in
managing
scan jobs
Preview window
has commands and tools for
controlling the scanner

Microtek ScanWizard Bio Reference Manual 3
Launching ScanWizard Bio
ScanWizard Bio can be launched in either Stand-alone or Plug-in mode.
• From Stand-alone mode: Double-click the ScanWizard Bio icon on the
desktop, or choose Start, Programs, Microtek ScanWizard Bio for Windows, and
then ScanWizard Bio
• From Plug-in mode: Choose the Import or Acquire command from the File
menu of your image-editing software, then select Microtek ScanWizard Bio.
Exiting ScanWizard Bio
To exit ScanWizard Bio, double click on the Close box on the upper left side of
the Preview window.
Click here to exit
ScanWizard Bio

4 Microtek ScanWizard Bio Reference Manual
The Preview Window
The Preview window is the most prominent window of the four major windows,
and it includes the various commands and tools for controlling the scanner.
Elements of the Preview window
D
K
I
H
G
J
A
FBC
M
L
E

Microtek ScanWizard Bio Reference Manual 5
A. Menu bar: The Menu bar includes the different menus for setting up the
scanner (Scanner menu), controlling view options (View menu),
customizing the software (Preferences menu), Image Correction function
(Correction menu), and accessing on-line help (Help menu).
B. Overview button: This button previews the specified or entire scan bed.
C. Prescan button: This button previews one or more detailed images of
the area(s) selected by the Frame (Scan Frame) tool.
D. Toolbar: The buttons in the Toolbar perform specific actions on the
overview image. Tool buttons include the Scan Frame (Frame) tool,
Zoom (Magnify Glass) tool, Move (Pan) tool, Pickers tool and Auto
Focus (AF) tool.
E. Scan to button: This button starts the final scanning process.
F Scan Material button: This shows the type of your scan material –
Reflective (photos and prints) or Transmissive (electrophoresis gels and
slides).
G Minimize button: Click it to minimize ScanWizard Bio.
H. Exit button: Click it to close ScanWizard Bio. Take note that when you
exit, you quit from ScanWizard Bio scanning software.
I. Preview area: The overview image is displayed in this area after you
perform a scan.
J. Resize: To increase or decrease the preview window, drag the bottom
right corner of the window to resize.
K. Status bar: This area shows you information pertinent to the operation
underway or being performed.
L. Rulers: Rulers are located on both sides of the Preview window to help
you with measurement and alignment.
M. Unit of Measurement: Select the unit of measurement for the rulers by
clicking the arrow button at the 0,0 point of the rulers and choosing
from the drop-down menu.

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Preview Area
The preview area is where the overview or prescan image appears after you click
either Overview, Prescan, or Scan to button.
By the default, the maximum size of the preview area is determined by your
scanner's bed size (or maximum scan area) . For example, if the scanner's
maximum scan area is 14" x 17", the maximum size of the preview area will be
limited under this dimension.
Preview area
To increase or
decrease the
preview
window, drag
the window to
resize

Microtek ScanWizard Bio Reference Manual 7
Scan Material
The Scan Material icon accesses the Scan Material menu. The appearance of the
Scan Material icon changes, depending on whether the scan material is reflective
or transmissive film.
If you are scanning reflectives (such as photos or printed materials),
this is the appearance of the Scan Material icon. When you click the
icon and hold down the mouse, you will see the Reflective option
checked.
If you are scanning positive films (such as electrophoresis gels or
slides), this is the appearance of the Scan Material icon. When you click
the icon and hold down the mouse, you will see the Transmissive option
checked.

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Unit of Measurement/Rulers
The rulers on both sides of the preview window assist you in measurement or in
checking the alignment of your image.
The unit of measurement in the ruler can be selected in two ways: in the Image
Dimension controls located in the Settings window, or by clicking the ruler unit
button at the 0,0 point of the rulers in the Preview window.
Depending on your selection, the rulers can mark off measurement in these
units: inch, centimeter, millimeter, point, and pixel. The pixel option is dimmed if
the selected resolution unit is lpi, and vice versa.
To select the unit of measurement for the rulers:
Click the unit box in the Settings window, or click the ruler unit button at the 0,0
point of the rulers in the Preview window. When the submenu appears, select
the unit of measurement.

Microtek ScanWizard Bio Reference Manual 9
Overview, Prescan, Scan to
The Scan to button is one of ScanWizard Bio’s great features, which functions
the productivity tools under it. Click and hold the mouse button to activate Scan
to options menu, you can select Scan to, Copy, or E-mail from the options
provided.
Overview
The Overview button offers a preliminary and low-resolution overview of the
image on the scan bed. By the default, the entire scan bed is previewed when
you click the Overview button. You are not allowed to change the area size to be
previewed in the Preview window.
Prescan
The Prescan button offers a high-resolution preview image of the area selected
by the scan frame tool. Multiple prescans can be done if you have several
selected scan jobs. The prescans are performed one by one in an order that they
are listed in the Scan Job Queue window.
Scan to
This is the default button when ScanWizard Bio is launched as a stand-alone
program (e.g., launched from the Start menu or the ScanWizard Bio icon on the
desktop) when scanning reflective materials. It performs the final scan and
delivers the scanned images to your selected folder or application.
When the “Scan To: Save As” dialog
box appears, key in a file name, then
select .tif, .bmp, .pcx, .dcx, .pdf, or
other as the export file format, and
click Save to perform the final scan.

10 Microtek ScanWizard Bio Reference Manual
Copy
Click the Scan To button and hold down the mouse until the options menu
appears, then select Copy. A scan is then performed, and the scanned image is
sent to the specified printer.
When the “Copy” dialog box
appears, select a default printer
or any alternative printer from
the options. Specify the number
of copies to be made, then click
OK.
E-mail
Click the Scan To button and hold down the mouse until the Options menu
appears, then select E-mail.
When the “E-mail: Save As”
dialog box appears, key in a file
name. It is recommended that
you use either .jpg or .bmp as
the file format.
Make sure that the check box
“Send image to application after
saving” has been checked. Then
choose your preferred E-mail
application from the options,
and click Save. The saved file can
now be attached to your E-mail
message automatically.

Microtek ScanWizard Bio Reference Manual 11
Toolbar
The Toolbar commands simplify the performance of certain tasks. The Toolbar
commands include Scan Frame (Frame), Zoom (Magnify Glass), Move (Pan),
Pickers and Auto Focus.
Scan Frame (Frame) tool
The Scan Frame tool lets you select the area to be scanned or prescanned. You
can have multiple scan frames, but only one scan frame can be current at a time;
the current scan frame is indicated by a flashing marquee. Multiple scan frames
can be more easily distinguished if you turn on the Smoked Glass Background
command (in the Preferences menu).
Zoom (Magnify Glass) tool
The Zoom tool lets you zoom in (magnify) and zoom out (reduce) your view of
the image. Only your view of the preview image is changed; the actual size of the
image remains unaffected. Each click of the zoom tool magnifies or reduces by a
factor of 2. Thus, the magnification levels increase from 100% to 200%, to
400%, and to the maximum 800%. When you reach the maximum magnification
factor, the center of the Zoom tool will appear empty.
To zoom out (reduce), hold down the Shift key and with the Zoom tool selected,
click the image. A minus sign will be in the middle of the lens to indicate the
image is being zoomed out.
Note: If the Info window is open, the zoom level will be indicated. This means you can
also zoom in by selecting the appropriate zoom level in the Info window.
Move (Pan) tool
The Move tool lets you scroll through an overview or prescan image, allowing
you to move parts of the image into view quickly without using the scroll bars.
You can use the Move tool for scrolling through zoomed-in images that were
enlarged through the Zoom tool, or for scrolling through parts of an image not
included completely within the frame of the preview window.
Zoom (Magnify Glass)
Move (Pan)
Auto Focus
White/BlackPointPickers
Scan Frame (Frame)

12 Microtek ScanWizard Bio Reference Manual
White/Black Point Pickers
The Picker tools allow you to sample color from a particular area in an image,
and are useful for designating shadow or highlight point.
The White Point Picker ( ) lets you define the whitest reference point in the
preview image. Once you have picked the whitest point, excessive white points
are clipped off.
The Black Point Picker ( ) lets you define the darkest reference point in the
preview image. Once you have picked the darkest point, excessive black points
are clipped off.
With the Picker tools, you can determine the color values for any pixel in an
image. When you click the White/Black Picker and pan over a pixel, the value
for that pixel is displayed in the Info window, based on the sample size selected
in the Info window. Pixel value information is useful especially when you are
making color adjustments based on color value.
To change the sample size of the Picker tool:
1. Open the Info window by choosing the Show Info Window command in the
View menu.
2. Click the Color Meter Options button located to the right of the K values in
the Info window.
3. Choose your options.
Select the sample size options from the drop-down list. For instance, the 1
by 1 option will display the value of one pixel — the pixel in the middle of
the Color Output Meter. The 3 X 3 option reads the average value of a 3-
pixel by 3-pixel area.
To display color information for a pixel or an averaged area:
1. Click the Picker tool.
2. As you pass over a point in the image, observe the Info window — the K
values will be displayed in the Color Output Meter. These values are in turn
based on the sample size you selected.

Microtek ScanWizard Bio Reference Manual 13
Auto Focus
The Auto Focus tool allows the scanner to change the focus position on images
through the movement of the CCD, resulting in better image quality for a chosen
area of the scan. You can either take the result which is the area applied with the
Auto Focus function is decided and selected by the software system
automatically, or assign a specific area of the scan frame applied with the Auto
Focus function by yourself. This function tool is activated only for the scanners
that support Auto Focus function (e.g., Bio-5000).
• The area applied with the Auto Focus function is decided and selected by
the software system automatically.
Click the OverviewOverview
OverviewOverview
Overview button to perform a preliminary scan of the image,
which will appear in the Preview window. Immediately, you can see a target
sign ( ) appearing on the overview image. The target sign marks the area
where the Auto Focus is applied to. In this case, the software system
automatically detects, calculates and selects the area applied with the Auto
Focus function.
The target sign marks the area applied
with the Auto Focus function, which is
selected by the software system.

14 Microtek ScanWizard Bio Reference Manual
• Select and apply the Auto Focus function to a specific area of the scan
frame by yourself.
a) Select the Scan FrameScan Frame
Scan FrameScan Frame
Scan Frame tool from the Toolbar in the Preview window,
and choose the area to be scanned by dragging a rectangle around it.
b) Select the Auto FocusAuto Focus
Auto FocusAuto Focus
Auto Focus tool from the Toolbar in the Preview window,
and select the area in the scan frame to which the AF function will be
applied.
A redefined Auto Focus frame (bordered in red) will appear within the
scan frame, labeled with the tag “AF”.
By the default, the Auto Focus function is not activated when your Scan Material
is set as Reflective or Transmissive. If you like to apply the Auto Focus function
to your scanned materials, you need to go to the Preference menu and to select
the More command, and then check the Auto Focus to activate this option.
The Auto Focus function
is not activated. The Auto Focus function is activated.