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P/N 4000126-10 RevAQuantity One®User Guide for Version 4.2.1Windows and Macintosh

Quantity One User GuidexMacintosh version. Both versions of a menu or dialog box will be shown only when there is a significant difference between the

Quantity One User Guide6-2appear active, but instead of capturing real images, the window will create “dummy” images of manufactured data.You do not n

GS-710 Imaging Densitometer6-3Fig. 6-2. GS-710 acquisition windowThe scanning window is marked by grid lines that divide the area into square centimet

Quantity One User Guide6-4The control panel has been arranged from top to bottom to guide you through the acquisition procedure. There are five basic s

GS-710 Imaging Densitometer6-5Fig. 6-3. Example of the application tree in the GS-710 dialog box.The applications are listed in a tree that expands fr

Quantity One User Guide6-6Choosing Your Own SettingsIf you know the filter and light source settings you want, or want to experiment with different set

GS-710 Imaging Densitometer6-76.3 Step II. Select Scan AreaPreview ScanBefore selecting the particular area to scan, you can preview the entire scanni

Quantity One User Guide6-86.4 Step III. Select ResolutionTo select from a list of possible scanner resolutions, click on the Select button under Selec

GS-710 Imaging Densitometer6-9Specifying Your Own ResolutionIf you select Oversample under More Options (see section 6.7, Other Options, for details),

Quantity One User Guide6-10The first time you use the GS-710, you must select some calibration settings to ensure that your calibration is accurate.To

GS-710 Imaging Densitometer6-11step tablet to which those density values belong. Those exact density values must be entered into the computer for the

1-11. Introduction1.1 Overview of Quantity OneQuantity One® is a powerful, flexible software package for imaging and analyzing 1-D electrophoresis gels

Quantity One User Guide6-12If you are in transmissive mode, you do need to enter the correct step tablet values that were shipped with your GS-710. Yo

GS-710 Imaging Densitometer6-13Diffuse density values are converted to specular optical density units according to the following formula:6.5.b Calibra

Quantity One User Guide6-14After the scan is complete, a window will open displaying the scan image, at which point you can analyze and save it.Note:

GS-710 Imaging Densitometer6-15Click on the Make Backup Copy checkbox. With this checkbox selected, when a scan is created and saved, a backup copy wi

Quantity One User Guide6-16

7-17. GS-800 Imaging DensitometerBefore you can begin scanning images with the GS-800 Imaging Densitometer®, your instrument must be properly installe

Quantity One User Guide7-27.1 GS-800 Acquisition WindowTo begin acquiring images, go to the File menu and select GS-800... The acquisition window for

GS-800 Imaging Densitometer7-3To hide the gridlines, click on the Hide Grid checkbox under Options.Below the main scanning window is the calibration s

Quantity One User Guide7-4Fig. 7-2. Example of the application tree in the GS-800 dialog box.The applications are listed in a tree that expands from l

GS-800 Imaging Densitometer7-5Choosing Your Own SettingsIf you know the filter and light source settings you want, or want to experiment with different

Quantity One User Guide1-2images can be easily converted into TIFF format for compatibility with other Macintosh and Windows applications.1.2 Digital

Quantity One User Guide7-67.3 Step II. Select Scan AreaPreview ScanBefore selecting the particular area to scan, you can preview the entire scanning a

GS-800 Imaging Densitometer7-77.4 Step III. Select ResolutionTo select from a list of possible scanner resolutions, click on the Select button under S

Quantity One User Guide7-8Fig. 7-7. Entering a custom resolution (with Oversample selected).Image File SizeImage File Size (under Select Resolution) s

GS-800 Imaging Densitometer7-9Fig. 7-8. Densitometer Options dialog box.7.5.a Editing the Step TabletBefore you scan for the first time, you must enter

Quantity One User Guide7-10Fig. 7-9. Step Tablet dialog box.In the step tablet dialog box, type the serial number for the printout into the Tablet Ser

GS-800 Imaging Densitometer7-11Diffuse Versus Specular O.D.In the step tablet form, you enter O.D. as diffuse density, and then the software automatic

Quantity One User Guide7-12application with the same filter and light settings, it will not auto recalibrate.)Calibration ReportTo print out a calibrat

GS-800 Imaging Densitometer7-13To turn on oversampling, click on the More Options button in the acquisition window and click on the Oversample checkbo

Quantity One User Guide7-14Hide GridTo hide the gridlines in the scanning area window, click on the Hide Grid checkbox.

8-18. Fluor-S MultiImagerFig. 8-1. Fluor-S MultiImager.Before you can begin acquiring images using the Fluor-S® MultiImager, the imaging system must b

Introduction1-3light source, or the Fluor-S and Fluor-S MAX MultiImagers with white light illumination. Signal intensity is expressed in counts when u

Quantity One User Guide8-2PC Only: A Note About SCSI CardsThe Fluor-S is connected to your computer by a Small Computer System Interface (SCSI) cable.

Fluor-S MultiImager8-3Fig. 8-2. Fluor-S acquisition windowWhen the Fluor-S window first opens, no image will be displayed.The control panel has been ar

Quantity One User Guide8-48.2 Step I. Select ApplicationTo set the appropriate filter and other parameters for the type of object you are imaging, clic

Fluor-S MultiImager8-5Custom ApplicationsIf your application is not listed, if you want to use a user-installed filter, or if you want to access High S

Quantity One User Guide8-6Scan DimensionIf an application uses trans illumination, the Scan Dimension buttons become active. The scan dimension is the

Fluor-S MultiImager8-7PositionAfter you have selected your application, you are ready to center your gel or other object within the camera frame. To d

Quantity One User Guide8-8portion of the sample (this will not affect any zoom lens adjustments you may have made.)When you are finished focusing, clic

Fluor-S MultiImager8-9For most applications, you can select an exposure time, capture an image, study it, then adjust the exposure time accordingly. R

Quantity One User Guide8-10A preview scan takes only half as long to create as a real scan, because the preview scan does not capture a “dark” image (

Fluor-S MultiImager8-11After an image has been acquired, a separate window will pop up containing the new image. The window will have a default file na

Quantity One User Guide1-4 Fig. 1-2. Steps Involved in Using Quantity One.Acquire ImageBefore you can use Quantity One to analyze a biological image,

Quantity One User Guide8-12Fig. 8-9. Options dialog box.8.6.a Dark Subtraction TypeAll CCD cameras accumulate electrons that produce a signal that is

Fluor-S MultiImager8-13ReferencedIf you do not want to perform a dark exposure with each acquisition, you can take a “reference” dark exposure that wi

Quantity One User Guide8-14A pop-up box will prompt you to enter a new reference dark exposure time in seconds. Click on OK to implement your change.

Fluor-S MultiImager8-15all your intermediate exposures will be saved as separate files. These files will have the same root name appended by a number in

Quantity One User Guide8-168.6.d Imaging Area SizeThe imaging area is the area of the sample that is captured by the camera and displayed in the scan

Fluor-S MultiImager8-17File Size of ImagesImage File Size shows the size of the image file you are about to create. This size is determined by whether

Quantity One User Guide8-18

9-19. Fluor-S MAX MultiImagerFig. 9-1. Fluor-S MAX MultiImager.Before you can begin acquiring images using the Fluor-S® MAX MultiImager, the imaging s

Quantity One User Guide9-2PC Only: A Note About SCSI CardsThe Fluor-S MAX is connected to your computer by a Small Computer System Interface (SCSI) ca

Fluor-S MAX MultiImager9-3Fig. 9-2. Fluor-S MAX acquisition window.When the Fluor-S MAX window first opens, no image will be displayed.The control pane

Introduction1-5Analyze ImageOnce a “clean” image is available, you can use Quantity One to gather and analyze your data. In the case of 1-D gels, the

Quantity One User Guide9-49.2 Step I. Select ApplicationTo set the appropriate filter and other parameters for the type of object you are imaging, clic

Fluor-S MAX MultiImager9-5Custom ApplicationsIf your application is not listed, if you want to use a user-installed filter, or if you want to access Ul

Quantity One User Guide9-6Scan DimensionIf an application uses trans illumination, the Scan Dimension buttons become active. The scan dimension is the

Fluor-S MAX MultiImager9-79.3 Step II. Position/FocusNote: When you click on the Position or Focus button, the light inside the Fluor-S MAX box automa

Quantity One User Guide9-8FocusNote: Before focusing, you should adjust the f-stop on the camera to the lowest setting (i.e., the maximum aperture). T

Fluor-S MAX MultiImager9-9The following table provides recommended exposure times for various applications.For most applications, you can select an ex

Quantity One User Guide9-10PreviewFor shorter exposures, you can use Preview to test different exposure times. Click on the Preview button create a pr

Fluor-S MAX MultiImager9-11Depending on which dark subtraction type you have selected, a dark count may be acquired immediately following image acquis

Quantity One User Guide9-129.6 OptionsClick on the Options button to open the Options dialog box.Fig. 9-10. Options dialog box.9.6.a Dark Subtraction

Fluor-S MAX MultiImager9-13The progress of the dark exposure will be displayed in the Exposure Status bar following the regular image exposure.Note: I

Quantity One User Guide1-6RAM: 64 MB for Gel Doc, Chemi Doc, and Fluor-S imaging systems. 128 MB for FX, Personal FX, and densitometers.Hard disk spac

Quantity One User Guide9-14Fig. 9-11. Reset Reference Dark pop-up box.A pop-up box will prompt you to enter a new reference dark exposure time in seco

Fluor-S MAX MultiImager9-15The total exposure time will be divided by the number you enter in the Exposure Count field. If you enter an exposure time o

Quantity One User Guide9-16Make Backup CopyYou can automatically create a backup copy of any scan you create. To do so, first select Auto Save After Sc

Fluor-S MAX MultiImager9-179.7 Other FeaturesFig. 9-12. Other Fluor-S MAX acquisition window features.Highlight Saturated PixelsWhen this box is check

Quantity One User Guide9-18

10-110.Personal Molecular Imager FXFig. 10-1. Personal Molecular Imager FXBefore you can begin acquiring images using the Personal Molecular Imager® F

Quantity One User Guide10-2PC Only: A Note About SCSI CardsThe Personal FX is connected to your computer by a Small Computer System Interface (SCSI) c

Personal Molecular Imager FX10-3Fig. 10-2. Personal FX acquisition windowThe default scanning window is marked by grid lines that divide the area into

Quantity One User Guide10-41. Select the scan area2. Select the resolution3. Acquire the image10.2 Step I. Select Scan AreaTo select a scan area, drag

Personal Molecular Imager FX10-5You can also select the scanning area by entering coordinates in the appropriate fields (Top, Bottom, Left, Right). Aft

Introduction1-7SCSI: Required to run all Bio-Rad imaging devices except the Gel Doc and Chemi Doc. Macintosh has built-in SCSI.Printer: Optional.1.6 I

Quantity One User Guide10-6File Size of ImagesImage File Size (below Select Resolution) shows the size of the scan file you are about to create. If you

Personal Molecular Imager FX10-710.5 OptionsAuto Save After ScanTo automatically save any scan you create, click on the Auto Save After Scan checkbox.

Quantity One User Guide10-8

11-111. Molecular Imager FXFig. 11-1. Molecular Imager FXBefore you can begin acquiring images using the Molecular Imager® FX, the instrument must be

Quantity One User Guide11-2you have an older PC, you may also need to load the SCSI and WinASPI drivers that came with your card.Simulation ModeAny of

Molecular Imager FX11-3Fig. 11-2. FX acquisition windowThe default scanning window is marked by grid lines that divide the area into quadrants. There

Quantity One User Guide11-42. Select the scan area.3. Select the resolution.4. Acquire the image.11.2 Step I. Select ApplicationTo select the appropri

Molecular Imager FX11-5First select your general application, next select the particular stain or medium you are using, and finally (if appropriate) se

Quantity One User Guide11-6Note: Some applications require an external laser. If you choose one of these without having an external laser attached, yo

Molecular Imager FX11-7Fig. 11-4. Creating a custom application.To select a filter (including user-defined) or filter combination, click on the buttons f

Quantity One User Guide1-8Installed Files and DirectoriesThe installation program will guide you through a series of screens. The installer will creat

Quantity One User Guide11-8Fig. 11-5. Selecting a custom PMT voltage.Note: For voltages above 80% of maximum, you will receive a warning message that

Molecular Imager FX11-9Fig. 11-6. Selecting a custom application.11.3 Step II. Select Scan AreaTo select a scan area, drag your mouse within the scann

Quantity One User Guide11-10If you are in quadrant mode, note that the frame “locks” onto the next quadrant as you drag. When you release the mouse bu

Molecular Imager FX11-11• 50 micrometer resolution should be reserved for images requiring the highest level of detail, e.g., high density in situ sam

Quantity One User Guide11-12Saving the ImageAfter the scan is complete, a message will appear asking you if you want to keep the scan. If you select Y

Molecular Imager FX11-13Highlight Saturated PixelsWhen this box is checked, any saturated pixels in the image will appear highlighted in red in the sc

Quantity One User Guide11-14

12-112. Viewing and Editing ImagesThis chapter describes the viewing tools for magnifying and optimizing your images. This chapter also describes the

Quantity One User Guide12-2Fig. 12-1. Viewing functions on View menu and main toolbar.Zoom BoxZoom Box allows you to select a small area of the image

Viewing and Editing Images12-3Fig. 12-2. Zoom Box tool.Zoom In/Zoom OutThese tools work like standard magnifying tools in other applications.Click on

Introduction1-9the instructions to download the installer and place it on your desktop. Then you can double-click on the installer icon to begin runni

Quantity One User Guide12-4incrementally within the window. The amount the image shifts is determined by the Pan % setting in the Preferences dialog b

Viewing and Editing Images12-5Tile will resize your windows and arrange them on the screen left to right and top to bottom.Tile Vertical will resize y

Quantity One User Guide12-6Density in BoxDensity in Box displays the average and total intensity within a boxed region on the image. Select Density in

Viewing and Editing Images12-7Fig. 12-4. Plot Cross-section tool.Plot Vertical TracePlot Vertical Trace plots an intensity trace of a vertical cross-

Quantity One User Guide12-812.4 Multi-Channel ViewerYou can use the Multi-Channel Viewer to distinguish different types and levels of fluorescence in a

Viewing and Editing Images12-9Note: Note that the color channel used to display an image in the viewer has no relation to the filter used when capturin

Quantity One User Guide12-10Note: If you deselect this checkbox, any images currently displayed will remain auto-scaled. Click on the Transform button

Viewing and Editing Images12-11Fig. 12-7. Image Stack Tool.In the Image Stack Tool window, all available gels will be listed in the field to the right

Quantity One User Guide12-12Alternatively, click on the Auto checkbox next to the arrow buttons to begin automatically scrolling through the list. You

Viewing and Editing Images12-13Fig. 12-9. List of Color Groups.Click on a color group in the list to select it.Changing a ColorAfter you have selecte

Quantity One User GuideiiBio-Rad Technical Service DepartmentPhone: (800) 424-6723, option 2, option 3(510) 741-6576Fax: (510) 741-5802E-mail: LSG.Tec

Quantity One User Guide1-101.8.a Software LicenseWhen the program first opens, you should see a “Welcome” dialog box that shows the current status of y

Quantity One User Guide12-14Saving/Selecting a Defined Set of ColorsAfter you have changed the colors within color groups, you can save these settings

Viewing and Editing Images12-1512.7 TransformIf features in your image are indistinct or fine details appear to be lost in background noise, you can us

Quantity One User Guide12-16Fig. 12-13. Transform dialog box.Note: Any changes made with the Transform controls will only affect how the image is dis

Viewing and Editing Images12-17Transform controls are automatically reflected in the Preview Window. They are only applied to the main image when you c

Quantity One User Guide12-18As you drag the sliders, the slider markers on the Frequency Distribution histogram will move. Everything to the left of t

Viewing and Editing Images12-19Fig. 12-14. Two views of the Frequency Distribution histogram.Gamma SliderSome images may be more effectively visualiz

Quantity One User Guide12-2012.7.c Other FeaturesFull Scale/Low-HighThe Full Scale/Low-High option buttons adjust how the range of data in the image i

Viewing and Editing Images12-21Highlight Saturated PixelsWhen the Highlight Saturated Pixels checkbox is selected, areas of the image with saturated s

Quantity One User Guide12-2212.8.a Cropping ImagesTo eliminate unwanted parts of an image, you can use the Crop tool. This is also an easy way to redu

Viewing and Editing Images12-23Fig. 12-16. Crop box and pop-up Crop dialog.If you select the Copy and Crop button, a dialog box will be displayed in

Introduction1-11PCFig. 1-6. PC Hardware Security KeyBefore proceeding, please turn off your computer. If you have a printerattached to your computer’

Quantity One User Guide12-2490° RotationsSelect Rotate 90 Left, Rotate 90 Right, or Rotate 180 from the Image > Rotate menu or Image toolbar to per

Viewing and Editing Images12-25Fig. 12-17. Custom rotation; the arrow points in the direction of the new top of the image.To perform the rotation, po

Quantity One User Guide12-26will then have the option of renaming your new image and changing the version number.If you are not satisfied with your rot

Viewing and Editing Images12-27Fig. 12-18. Subtract Background dialog box.The Subtract Background dialog box has a Preview Window, which contains a s

Quantity One User Guide12-28You can use view tools like Zoom Box and View Entire Image in the Preview Window just as you can in the main image window,

Viewing and Editing Images12-29Fig. 12-19. Images without and with Dark Contrast adjustment. Note that in Exam-ple A, with no Dark Contrast adjustmen

Quantity One User Guide12-30Click on the Background Box button, then drag on the image, defining an area that is representative of the background for y

Viewing and Editing Images12-31If you choose to copy and subtract, you will be asked to enter a new name and/or version number for the new copy before

Quantity One User Guide12-3212.10.a Filter WizardThe Filter Wizard is designed to guide you through the filter selection process. First, you identify t

Viewing and Editing Images12-33Step I: Identify Noise CharacteristicsThe first step in the Wizard is to identify the type of noise in your image. Exami

Quantity One User Guide1-12MacintoshFig. 1-7. Macintosh Hardware Security KeyBefore proceeding, please turn off your Macintosh.The Macintosh HSK must

Quantity One User Guide12-34The available filter dimensions range from 3 x 3 pixels to 9 x 9 pixels. To select an appropriate size, magnify a backgroun

Viewing and Editing Images12-35• Median. Also useful for suppressing salt-and-pepper noise, this filter calculates the median value of the pixels withi

Quantity One User Guide12-36Fig. 12-22. Selecting a filter size.The available filter dimensions range from 3 x 3 pixels to 9 x 9 pixels. (See the prev

Viewing and Editing Images12-37To invert your image data, select Image > Invert Data or select Invert Data from the Image Tools. You may need to us

Quantity One User Guide12-38To enter your text, simply begin typing in the main field. The buttons in the dialog allow you to select the properties of

Viewing and Editing Images12-39First, you must select the object(s). Click on the Select Tool button on the Text Overlay toolbar. To select a single o

Quantity One User Guide12-4012.13 Erasing All Analysis from an ImageIf you want to delete all analysis that has been performed on an image (including

13-113. LanesBefore you can use many of the analysis functions, you must first define lanes and bands on your gel image. This chapter describes the tool

Quantity One User Guide13-213.1.a Creating a Lane FrameThe fastest way to define all of the lanes in your image is to create a lane frame using the Aut

Lanes13-3The lane frame contains individual lanes numbered sequentially from left to right. The border and anchor lines of the frame are marked with d

Introduction1-13Fig. 1-9. Free Trial screen.Click on the Free Trial button. This will open the Software License Registration Form (see next section).

Quantity One User Guide13-4Fig. 13-4. Lane frame created using the Frame Lanes command.The lane frame overlay contains individual lanes numbered seq

Lanes13-5Fig. 13-5. Edit Frame tools.Adjusting the Entire FrameThe following commands are located on the Lane > Edit Frame submenu:• To stretch th

Quantity One User Guide13-6Still using Add/Adjust Anchors, click anywhere on the dashed lines of the frame border. This creates additional anchor poin

Lanes13-713.1.c Defining a Single LaneYou can define individual lanes using the single lane functions. These are located on the Single Lane submenu of t

Quantity One User Guide13-813.1.e Unadjusting Single LanesYou can undo any of your lane adjustments with the Unadjust Lane command. Select Unadjust La

Lanes13-9When detecting bands, you should select a Lane Width that is slightly wider than the actual lanes in your gel. Note: You must eliminate backg

Quantity One User Guide13-10The profile is generated by calculating the average intensity of the pixels in every horizontal scan line along the defined

Lanes13-11Lanes to ModelIf you want to apply the background subtraction to all the lanes of your image, click on the All button. Otherwise, select One

Quantity One User Guide13-12If you select Rolling Disk, the dialog box will expand to reveal a field showing the size of the rolling disk. The Disk Siz

Lanes13-1313.3 Compare LanesThe Compare Lanes graph allows you to superimpose the intensity profiles of any number of lanes from any number of open ima

Quantity One User Guide1-14Fig. 1-10. Temporary License screen.Click on the Run button to begin using the software.If you are using an HSK, some time

Quantity One User Guide13-14Adding and Removing Lanes from the GraphTo add a lane to the graph, click directly on the lane in the image. The plot of t

Lanes13-15Align Band TypesThe Align Band Types checkbox will become active if any of the lanes being profiled includes defined band types (see section 1

Quantity One User Guide13-16Printing and ExportingClick on the Print button to print a copy of the Compare Lanes display.Click on the Export button to

Lanes13-1713.4 Lane-based ArraysThe lane-based array functions allow you to create a lane frame for the cells in your array. You can then specify the

Quantity One User Guide13-18Fig. 13-17. Setting the number of array rows.The array matrix will appear on the image. Each column will be marked by a r

Lanes13-19Setting Array Cell Height and WidthNow you should adjust the cell brackets so that they completely enclose the cells in the array.Select Arr

Quantity One User Guide13-20Analyzing Array DataWhen the brackets fully enclose each cell in the array, you are ready to analyze the data. You can dis

14-114. BandsOnce you have defined the lanes on your gel image, you can automatically identify and quantitate the bands in those lanes using a set of a

Quantity One User Guide14-214.1 How Bands Are Identified and QuantifiedYou can automatically identify all the bands in your image using the Detect Bands

Bands14-3Fig. 14-2. Illustration of bracket quantitation.14.2 Automatically Identifying All BandsThe Detect Bands function will find all of the bands i

Introduction1-15Fig. 1-11. Software License Registration Form.Note: If you do not yet have a Purchase Order Number or Software Serial Number, you may

Quantity One User Guide14-4Select Band > Detect Bands or click on the button on the Band toolbar to open the Detect Bands dialog box.Fig. 14-3. Det

Bands14-5The Detect Bands dialog box has both a short format and an expanded format, which you can toggle between by clicking the toggle box in the lo

Quantity One User Guide14-6If you select the No button next to the Normalize prompt, the band detection parameters are taken as absolute values and ar

Bands14-7If the sensitivity is set too high, background noise will be erroneously detected as bands. If the setting is too low, real bands may be miss

Quantity One User Guide14-8Minimum Density When Normalization is turned off, this is the lowest signal intensity value that will be counted as a band.

Bands14-9Shoulder SensitivityNormally, band detection tries to distinguish shoulders as separate bands. When looking at a lane trace, these bands appe

Quantity One User Guide14-10Fig. 14-5. Parameter set controls in the Detect Bands dialog box.If you have not already entered a name for your parameter

Bands14-11Fig. 14-6. Create, Adjust, and Remove Bands buttons.Note: When editing individual bands, it is useful to display your bands as brackets usin

Quantity One User Guide14-12Fig. 14-7. Creating a band in brackets mode.When you release the mouse button, brackets will appear enclosing the region t

Bands14-13Fig. 14-8. Creating a band in lines mode.In lines mode, no intensity trace will pop up when you click on the image.Note: After identifying s

Quantity One User Guide1-16Software License screen to update your license. (To access the Software License screen from within the application, select

Quantity One User Guide14-1414.3.c Deleting BandsYou can use Remove Band to delete bands from lanes.Select Remove Band from the menu or toolbar, point

Bands14-15Fig. 14-10. Bands in Lane command.14.5 Band AttributesOnce you have identified bands in your image, you can display information about them us

Quantity One User Guide14-16Fig. 14-11. Band Attributes dialog box.Click on any of the buttons in the Band Labels group to display that particular at

Bands14-17• Molecular weight/Isoelectric Point/Base Pairs/other units—This value is determined by the type of standards defined for the gel, the band’s

Quantity One User Guide14-18• Band model—Displays the modeling lines across the gel that are generated by band matching, standards, or both. These lin

Bands14-19Fig. 14-12. Band Information dialog box.The Lane and Band number of the band you clicked on are listed at the top of the dialog. Enter new n

Quantity One User Guide14-20Note: Note that Normalized Rf is derived from Relative Front; however, Normalized Rf is calculated only for bands that hav

Bands14-21curve you want to use. (See section 15.3 for information on calibration curves.)14.7 Gauss-Modeling BandsIf your bands are closely spaced or

Quantity One User Guide14-22Fig.14-13. Profiles of two overlapping bands, without Gaussian modeling (top) and with Gaussian modeling (bottom). Note ho

Bands14-23A small dialog box will open prompting you to select all your lanes or one of your lanes to model.Fig. 14-14. Gauss-model Bands dialog box.I

Introduction1-17Fig. 1-12. Enter Password screen.In the Enter Password screen, type in your password in the field.Once you have typed in the correct p

Quantity One User Guide14-24Adjusting Bands in a Gauss-modeled LaneIf you use any of the individual band commands—Create Band, Delete Band, Adjust Ban

Bands14-2514.8 Irregularly Shaped Bands in LanesIf the bands in your lanes are irregularly shaped, you can use the contour or drawing features to defin

Quantity One User Guide14-26The functions needed to contour and draw bands are found on the Contour and Draw Band submenus of the Band menu, as well a

Bands14-27Contour InformationTo display information about the contour, select Contour Information while the contour is highlighted. A pop-up box will

Quantity One User Guide14-28Density in RegionUse Density in Region to get intensity and area information about any region on an image.Select Density i

Bands14-29Drag the cursor around the perimeter of the region you want to define as a band. A line will appear, defining the boundary.Fig. 14-20. Draw Ba

Quantity One User Guide14-30Editing Band BoundariesIf your drawn band needs minor adjustments, you can fix it using Edit Band Boundary. Select Edit Ban

15-115. Standards and Band MatchingAfter you have defined the lanes and bands in your image, you can define the molecular weight, base pair, or other st

Quantity One User Guide15-215.1 Defining and Applying StandardsIf you are using molecular weight, isoelectric point, base pair, or other mobility stand

Standards and Band Matching15-3Fig. 15-3. Selecting a set of standards.A list will open, prompting you to select new standards, previously created sta

Quantity One User Guide1-18

Quantity One User Guide15-4Fig. 15-4. Specifying units.Click on the Units button to specify your units. This opens a dialog box in which you can selec

Standards and Band Matching15-515.1.a Standards FormFig. 15-5. Standards form.The Standards form contains the values of your standards, and includes t

Quantity One User Guide15-6be the descriptive name of the standards. You can change the name by typing in the text box next to the Standards prompt.Yo

Standards and Band Matching15-7To remove a standard value, click on the triangle button at the beginning of the row and select Delete from the pop-up

Quantity One User Guide15-8click on the band to be assigned the standard value. The subsequent bands in the lane will be numbered sequentially based o

Standards and Band Matching15-9bands. (Note: You must apply the values to a lane before you can view and adjust the regression curve.)Click on the Sta

Quantity One User Guide15-10Standards Regression ModelsSelect different regression models in the options dialog box while you study the standard curve

Standards and Band Matching15-11Display OptionsThe following options will change how the curve graph is displayed:Show Standard Points displays the st

Quantity One User Guide15-12To save the standard values with the image, click on the Close button to close the Standards form, then save the image. Wh

Standards and Band Matching15-13After you remove this file, a new, empty ONEDPREFS.DBS database will be automatically created the next time you open an

2-12. General Operation2.1 Graphical Interface2.1.a Menu BarQuantity One has a standard menu bar with pulldown menus that contain all the major featur

Quantity One User Guide15-14If you have defined standards in the gel, a pop-up box will warn you that the regression model for calculating band values

Standards and Band Matching15-15Yellow bands are bands that the software cannot accurately match. The matching algorithm is deliberately conservative

Quantity One User Guide15-16Note: Band types should only be added to areas of the gel image that are modeled well. The modeling lines are designed to

Standards and Band Matching15-17To open the form, select Matched Band Set from the Match menu or toolbar, then click anywhere on the image.Fig. 15-12.

Quantity One User Guide15-18List of Band TypesThe values of the individual band types are listed within the dialog box in a table format. These values

Standards and Band Matching15-19Band Set ToolbarThe toolbar in the Band Set form contains all the commands needed for matching.Fig. 15-14. Band set to

Quantity One User Guide15-20Outlier excludes a known (green) band from the band set model. However, the band will still be marked as known.Show Band T

Standards and Band Matching15-21Propagate Band Set is a feature that not only simplifies assigning band types, it allows the software to do some optimi

Quantity One User Guide15-22Fig. 15-15. Match Graphs submenu.From the Match Graphs submenu, select the match graph you want to display, then click on

Standards and Band Matching15-23• Contour displays a histogram of the density of each contoured band in a band type. This function only works with con

Table of Contentsiii1. Introduction ... 1-11.1. Overview of Quantity One ...

Quantity One User Guide2-2Below the menu bar is the main toolbar, containing some of the most commonly used commands. Next to the main toolbar are the

Quantity One User Guide15-24Note: Relative quantity expresses the quantity of each band as a percentage of either all the bands in a lane or the total

Standards and Band Matching15-25Fig. 15-18. Quantity Standards dialog box.The dialog box will open with a default name for the quantity standards (e.g

Quantity One User Guide15-26Selecting Bands of Known Quantity The dialog box includes three buttons that are used to select bands on the gel image wit

Standards and Band Matching15-27Fig. 15-20. Entering the known quantities. After you have entered a few quantities, the status of the remaining bands

Quantity One User Guide15-28To remove a band from the quantity standards and omit it from calibration curve calculations, click on the Remove option.

Standards and Band Matching15-29Fig. 15-21. Calibration curve with titles displayed, linear regression, and extrapolation.Points used to calculate the

Quantity One User Guide15-3015.3.c Applying the Calibration CurveOnce you have selected known bands and entered values for them, you are ready to choo

Standards and Band Matching15-31In the Quantity Standards dialog box, next to the band that came from the undiluted stock solution, enter the known qu

Quantity One User Guide15-32When you make your selection, the values associated with it will be displayed in the Quantity Standards dialog box. Each s

16-116. Volume ToolsYou can use the Volume tools to quantitate bands, spots, arrays, and other image data.What is a Volume?A volume is the intensity d

General Operation2-3The first box displays any function that is assigned to the mouse (see section 2.2, Mouse-assignable Tools). If you select a comman

Quantity One User Guide16-2Fig. 16-1. Volume tools.Note: When using any of the following tools, be careful to completely surround the data you want t

Volume Tools16-3Fig. 16-2. Volume contour.The contour should completely surround the data you want to quantify.To edit the contour, position your cur

Quantity One User Guide16-4Volume Rect ToolVolume Rectangle Tool will create a volume box around an object. To use this tool, click on the Volume Rect

Volume Tools16-5Fig. 16-5. Volume circle.The volume circle should completely surround the data you want to quantify.To resize the circle, click on it

Quantity One User Guide16-6To reselect the volume, click on it again. If you move your cursor over the volume—selected or unselected—the border will c

Volume Tools16-7• To move the selected volume or volumes, position your cursor over the selection and drag.• To copy within an image, hold down the CT

Quantity One User Guide16-8Fig. 16-6. Volume Properties dialog box.Select the Standard option button, then enter the concentration in the Concentrati

Volume Tools16-916.4 Volume Background SubtractionWhen you draw a volume, you will probably include some non-data background pixels inside the volume.

Quantity One User Guide16-10Any pixels inside the volume that have the same intensity as the background pixels will be reduced to zero, thereby elimin

Volume Tools16-11The average intensity of the pixels in that background volume will be calculated and subtracted from each pixel in all standard and u

Quantity One User Guide2-4Fig. 2-4. Secondary toolbar formats and features.The expanded toolbar format shows the name of each of the commands. Click

Quantity One User Guide16-12What Is a Volume Array?A volume array is a matrix of volume circles or rectangles that can be sized/positioned as a group

Volume Tools16-13Select the shape of the wells/cells (Circular or Rectangular) and click on OK.The array overlay will be created and displayed on the

Quantity One User Guide16-14Moving an ArrayTo reposition an array overlay, move your cursor over any individual cell until the cursor changes to a mul

Volume Tools16-15Hold down your mouse button and drag the array frame in or out to compress/expand the array.Resizing the Array CellsTo resize the ind

Quantity One User Guide16-16Ungrouping an ArrayYou can ungroup the individual cells in an array, so they behave like normal, stand-alone volumes.With

17-117. Colony CountingYou can use Quantity One to automatically count the number of white, blue, or plaque colonies in a Petri dish image.Note: For b

Quantity One User Guide17-2Fig. 17-1. Colony Counting control panel.The Colony Counting control panel has been arranged from top to bottom to guide yo

Colony Counting17-3Fig. 17-2. Defining a counting region.If you make a mistake in defining your counting region, click on the Reset button at the botto

Quantity One User Guide17-417.2 Counting the ColoniesAfter you have positioned the circle, you are ready to detect colonies.If you are counting plaque

Colony Counting17-517.3 Displaying the ResultsAfter you click on Count, the number of detected colonies will appear in the Results section of the dial

General Operation2-5Fig. 2-5. Quick Guides listed on Help menu and main toolbar.The Quick Guides are similar in design to the secondary toolbars, but

Quantity One User Guide17-617.4 Making and Erasing Individual ColoniesIf automatic colony detection has missed or erroneously detected some colonies,

Colony Counting17-7Colonies Versus Background NoiseIf there is a clear peak on the left end of the colony counting histogram, it is probably due to ba

Quantity One User Guide17-8Fig. 17-6. Using the White/Blue slider.Drag the White/Blue slider to the left until it is positioned between the two peaks.

Colony Counting17-9Click on the Ignore Region button, then position your cursor on one edge of the region you want to ignore. Drag your cursor on the

Quantity One User Guide17-10The adjusted count is an estimate of the total colony count in the Petri dish; it uses the known colonies to extrapolate t

Colony Counting17-11Fig. 17-8. Batch Mode controls.Creating/Opening a Batch FileTo create a new batch file, click on the New Batch button. This will op

Quantity One User Guide17-12Naming/Saving a CountEnter a name for the count you want to save in the Count Name field, or use the default name (the file

18-118. Differential Display and VNTRsThis chapter describes the tools in Quantity One for studying sequence expression in PCR gels and counting VNTRs

Quantity One User Guide18-2NormalizationTo assign a normalized band type, select Normalize from the Match menu and then click on a matched band that a

Differential Display and VNTRs18-31. nq > ratio x mean andnq > mean + quantity2. nq < (1/ratio) x mean andnq < mean – differenceratio = 1.

Quantity One User Guide2-6Note: You will find that as you become more familiar with the application, you will skip operations that are not needed for y

Quantity One User Guide18-418.2 Variable Number Tandem RepeatsIf your experiments involve the use of microsatellites, VNTRs, or other repeated element

Differential Display and VNTRs18-5In the text box next to the Flanking Region Size prompt, enter the size (in base pairs or other repeated units) of t

Quantity One User Guide18-6Finally, specify whether the tandem repeat numbers that meet the ambiguity criteria should be marked with an asterisk (*) o

19-119. ReportsQuantity One can display and print a variety of different analysis reports. You can format the reports to include different kinds of da

Quantity One User Guide19-2Fig. 19-2. Example of a report window.The standard report window has buttons for printing the report, scrolling through the

Reports19-3Scrolling Through the Screen PagesIf your report has multiple screen pages, the scroll buttons in the report window will become active. You

Quantity One User Guide19-4Note: If you select Print All Pages, the number of pages printed may be less than the number of screen pages listed in the

Reports19-5Reformatting Your DataIf you change your mind about the data to display in your report window, click on the Reformat button (not available

Quantity One User Guide19-6Fig. 19-5. Report Options form.Select the data you want to display in the report by clicking on the appropriate checkboxes.

Reports19-7To load or delete previously saved settings, click on the button next to the Settings to Load or Delete field and select from the list of sa

General Operation2-72.3 Keyboard CommandsMany commands and functions may be executed using keyboard commands (e.g., pressing the F1 key will activate

Quantity One User Guide19-8Note: If you change your mind about the data to display, you can change the report options from within the report itself by

Reports19-9Band Weighting means that band intensity as well as position will be used when comparing the similarity of your samples. Select Yes to use

Quantity One User Guide19-10si = 0 if the lane does not have a band assigned to the i'th type.Otherwise:si = The quantity of the band assigned to

Reports19-11Fig. 19-9. Compare Lane Images report window.The Compare Lane Images report will be displayed in a standard report window (see section 19.

Quantity One User Guide19-12The Print Report dialog for this report contains special fields for entering atitle for your report.19.4.b Phylogenetic Tre

Reports19-13Fig. 19-10. The Phylogenetic Tree report window.The report window for phylogenetic trees is slightly different than the standard report wi

Quantity One User Guide19-14Neighbor JoiningThis type of phylogenetic tree is computed is based on minimizing the total branch length at each stage of

Reports19-15np the number of samples in the p'th cluster.nq the number of clusters in the q'th cluster.n the number of clusters in the k&apo

Quantity One User Guide19-16WPGAMA is a special case of UPGAMA that favors the most recent member clusters in forming new clusters.CentroidMedianCentr

Reports19-17Fig. 19-11. Two forms of the Options dialog box.The box on the left has controls that are specific for the Neighbor Joining method. The box

Quantity One User Guide2-8Fig. 2-8. File menu.OpenTo open a previously saved image, select Open from the File menu or main toolbar. This opens the Op

Quantity One User Guide19-18The Min. and Max. sliders are active only for proportionally aligned Neighbor Joined trees. They allow you to adjust the M

Reports19-19Fig. 19-12. Similarity Matrix report.The Similarity Matrix report will be displayed in a standard report window (see section 19.1 for info

Quantity One User Guide19-20When you have selected your report options, click on the OK button.The report will be displayed in a standard report windo

Reports19-21• Type—Unknown, standard, or background.• Volume—Sum of the intensities of the pixels inside the volume boundary x area of a single pixel

Quantity One User Guide19-22Other OptionsThe Image Display Options affect how the image is displayed and/or printed on the report.You can choose wheth

Reports19-23Fig. 19-14. Volume Regression Curve window.Each standard volume is marked by a red X and each unknown is marked by a blue triangle.The X a

Quantity One User Guide19-24To print your curve, click on the Print button. This will open the standard Print Report dialog box.To close the Volume Re

Reports19-25The report is displayed in a standard report window (see section 19.1 above for information about standard report window options).The repo

Quantity One User Guide19-26

20-120. Printing and ExportingThe commands for printing and exporting images are located on the File menu.Reports (Volumes, VNTR, Phylogenetic Tree, e

General Operation2-9Fig. 2-9. Open dialog box.In the dialog box, open a file by selecting the file name and clicking on the Open button. To look for fil

Quantity One User Guide20-2File > Print > Print Image opens the Print Image dialog box.Fig. 20-1. Print Image dialog box.At the top of the dialo

Printing and Exporting20-3Print Settings: Windows OnlyClick on Printer to display a list of your available printers. After you have selected a printer

Quantity One User Guide20-4Select Print Actual Size from the File > Print menu. The standard Print Image dialog box will open (see previous section

Printing and Exporting20-520.1.d Video PrintingThe Video Print command allows you to print images and reports on a video printer. To create a video pr

Quantity One User Guide20-6Fig. 20-2. Export to TIFF Image dialog box.Analysis Export ModeAnalysis mode exports the scan data, unmodified by any viewin

Printing and Exporting20-7Note: This is the only mode available if you are exporting from the Multi-channel Viewer.In Publishing mode, you can specify

Quantity One User Guide20-8

A-1Appendix ACross-Platform File ExchangeIt is possible to move image data between Discovery Series software applications on different platforms. Ther

Quantity One User GuideA-2

B-1Appendix BOther FeaturesThe following features are available in Quantity One, but have more utility in its more powerful companion application, Div

Quantity One User Guide2-10You can also open images captured by other Discovery Series software and Multi-Analyst™ software. The application comes wit

Quantity One User GuideB-2Fig. B-2. Edit Category dialog box.Type the name of the new category (e.g., “Color”) next to the Category prompt and list a

Appendix B. Other FeaturesB-3Fig. B-3. Selecting a category and attribute.Select the category to be applied from the available categories on the list

Quantity One User GuideB-4 Fig. B-4. Gel Layout dialog box.The following information about your gel can be specified at the top of the Gel Layout form

Appendix B. Other FeaturesB-5Each lane in your gel has its own line on the Gel Layout form. The following information can be specified for a lane. (See

Quantity One User GuideB-6

IndexI-1AAnnotations. See Text Overlays.Application icon ...

I-2Quantity One User GuideBrackets or lines preference ... 2-23Contouring ...

IndexI-3Exposure time ... 3-7, 4-7Freeze ...

I-4Quantity One User GuideColors, setting ... 12-12Com

IndexI-5FFile locations in Windows ... 1-8Filter Wizard ...

General Operation2-11Discovery Series, although most scanners that are capable of producing 24-bit and indexed color images will be able to produce gr

I-6Quantity One User GuideImaging area size ... 8-16Live acquire

IndexI-7Saving images ... 3-9Simulation mode ...

I-8Quantity One User GuideScanning window ... 6-3SCSI card ...

IndexI-9Colors ... 12-12Contrast ...

I-10Quantity One User GuideLanesAdjusting ... 13-7C

IndexI-11Saturated pixels, highlighting ... 11-13Saving the image ...

I-12Quantity One User GuideSaving the image ... 10-6Scanning win

IndexI-13Quantity StandardsApplying to bands ... 15-30Calibration cur

I-14Quantity One User GuideRevert to Saved ... 2-12Rot

IndexI-15Starting the program ... 1-9Status boxes ...

Quantity One User Guideiv3.7. Display ... 3-103

Quantity One User Guide2-12 Save AllSave All on the main toolbar or File menu saves all images that are currently open.In Windows, new images will be

I-16Quantity One User GuideUUnable to Obtain Authorization message ... 1-10VVideo printing ...

IndexI-17ZZoom Box ... 12-2Zoom In/Zoom Out .

General Operation2-13Fig. 2-10. Image Info box.To print the file info, click on the Print button in the dialog box.Change the Image DimensionsYou can

Quantity One User Guide2-14Fig. 2-11. Image Info dialog box with fields for changing the image dimensions.Enter the new image dimensions (in millimet

General Operation2-15Note: Reducing the file size of an image will result in some loss of resolution. In most cases this will not affect quantitation.

Quantity One User Guide2-16Note: Since with most 1-D gels you are more concerned with resolving bands in the vertical direction than the horizontal di

General Operation2-171. Gel Doc 1000/20002. Chemi Doc3. GS-700 Imaging Densitometer4. GS-710 Imaging Densitometer5. Fluor-S MultiImager6. Fluor-S MAX

Quantity One User Guide2-18Fig. 2-14. Preferences dialog box.Click on the appropriate tab to access groups of related preferences. After you have sel

General Operation2-19GLP/GMP ModeThe GLP/GMP Mode checkbox allows you to prevent changes to an image that would change the raw image data. In GLP/GMP

Quantity One User Guide2-20Show Volumes Quick GuideIf this checkbox is selected, the Volumes Quick Guide will open automatically when you open the pro

General Operation2-21functions, while experienced users can specify a longer delay once they are familiar with the icons.Tool Help Persistence determi

Contentsv7. GS-800 Imaging Densitometer ... 7-17.1. GS-800 Acquisition Window ...

Quantity One User Guide2-221. Dividing the distance a band has traveled down a lane by the length of the lane (Follow Lane). This is useful if your ge

General Operation2-23Band StyleBands in your gel image can be marked with brackets that define the top and bottom boundaries of the band, or they can b

Quantity One User Guide2-24

3-13. Gel DocFig. 3-1. Gel Doc.Before you can begin acquiring images, the Gel Doc system must be properly installed and connected with the host compu

Quantity One User Guide3-2Make sure that your Gel Doc camera is turned on. If the camera is not turned on, the Gel Doc acquisition window will open bu

Gel Doc3-3Fig. 3-2. Gel Doc acquisition windowThe Gel Doc video display window will open in “live” mode, giving you a live video display of your sampl

Quantity One User Guide3-43. Select the output.3.2 Step I. Position GelThe Gel Doc window will open in “live” mode, giving you a live video display of

Gel Doc3-5the size of the area you are focusing on. To determine the size of the area you are focusing on, you can place a ruler in the Gel Doc box so

Quantity One User Guide3-6Fig. 3-4. Auto Expose.Once an image has reached the specified percent of saturated pixels, it is captured and displayed in th

Gel Doc3-7Fig. 3-5. Manual Expose.With Manual Expose activated, you can adjust the exposure time directly by changing the number of seconds in the Exp

Quantity One User Guidevi10.4. Acquire the Image ... 10-610.5. Opti

Quantity One User Guide3-8Note: Freeze is automatically activated if you adjust any of the subsequent controls (e.g., Video Print, Image Mode, Display

Gel Doc3-9The image will not be saved until you select Save or Save As from the File menu.AnalyzeClicking on Analyze will open a separate image window

Quantity One User Guide3-10White LightSelect this mode for reflective and transmissive samples. With this mode selected, the data will be measured in u

Gel Doc3-11Highlight Saturated PixelsWhen this box is checked, any saturated pixels in the image will appear highlighted in red in the scan window and

Quantity One User Guide3-12ResetReset will return the image to its original, unmodified appearance.3.8 OptionsClick on the Options button to open the O

Gel Doc3-13DAC SettingsNote: The default DAC settings are highly recommended and should be changed with caution.These sliders may be used to adjust th

Quantity One User Guide3-14Video Printing Footer InformationThe checkboxes in this group allow you to specify the information that will appear at the

4-14. Chemi DocFig. 4-1. Chemi Doc.Before you can begin acquiring images, the Chemi Doc system must be properly installed and connected with the host

Quantity One User Guide4-2Make sure that your Chemi Doc camera is turned on. If the camera is not turned on, the Chemi Doc acquisition window will ope

Chemi Doc4-3Fig. 4-2. Chemi Doc acquisition windowThe Chemi Doc video display window will open in “live” mode, giving you a live video display of you

Contentsvii14. Bands ... 14-114.1. How Bands Are Identified and Quantif

Quantity One User Guide4-43. Select the output.4.2 Step I. Position GelThe Chemi Doc window will open in “live” mode, giving you a live video display

Chemi Doc4-54.3 Step II. Acquire ImageFor many white light applications, you can skip this step and save and print images directly from Live/Focus mod

Quantity One User Guide4-6Fig. 4-4. Selecting Auto Expose.Once an image has reached the specified percentage of saturated pixels, it is captured and d

Chemi Doc4-7Fig. 4-5. Setting a manual exposure.With Manual Expose activated, you can adjust the exposure time directly by changing the number of sec

Quantity One User Guide4-8In Chemi mode, Manual Expose will expose an image over the specified exposure time and then stop automatically.Note: Freeze i

Chemi Doc4-9Click on OK in the settings dialog to begin taking exposures. If you selected Save Images, a Save dialog box will open in which you can sp

Quantity One User Guide4-10Fig. 4-8. Output options.Video PrintClicking on Video Print will automatically send the currently displayed frame (either

Chemi Doc4-11You can then analyze the image using the other features in the main application. The image will not be saved until you select Save or Sav

Quantity One User Guide4-12Note: This setting will invert the data in your image, so that a pixel with an intensity of 255 will be changed to 0, and v

Chemi Doc4-13Highlight Saturated PixelsWhen this box is checked, any saturated pixels in the image will appear highlighted in red in the scan window a

Quantity One User Guideviii18. Differential Display and VNTRs ... 18-118.1. Differential Display ...

Quantity One User Guide4-14ResetReset will return the image to its original, unmodified appearance.4.8 OptionsClick on the Options button to open the O

Chemi Doc4-15DAC SettingsNote: The default DAC settings are highly recommended and should be changed with caution.These sliders may be used to adjust

Quantity One User Guide4-16Video Printing Footer InformationThe checkboxes in this group allow you to specify the information that will appear at the

5-15. GS-700 Imaging DensitometerFig. 5-1. GS-700 Imaging DensitometerBefore you can begin scanning images with the GS-700 Imaging Densitometer®, your

Quantity One User Guide5-2appear active, but instead of capturing real images, the window will create “dummy” images of manufactured data.You do not n

GS-700 Imaging Densitometer5-3Fig. 5-2. GS-700 acquisition windowThe scanning window is marked by grid lines that divide the area into square centimet

Quantity One User Guide5-4The control panel has been arranged from top to bottom to guide you through the acquisition procedure. There are four basic

GS-700 Imaging Densitometer5-5The applications are listed in a tree that expands from left to right. First you select the category of your application

Quantity One User Guide5-6Next to Filter, click on either the Red, Green, Blue, or White checkbox, or a combination of two of the first three (Red-Gree

GS-700 Imaging Densitometer5-7Selecting an AreaUsing the preview scan as a guide, select your scan area by dragging your mouse within the scanning win

ixPreface1. About This DocumentThis user guide is designed to be used as a reference in your everyday use of Quantity One®. It provides detailed infor

Quantity One User Guide5-8Fig. 5-7. Select Scan Resolution dialog box.Available resolutions are listed from highest to lowest in terms of the dimensio

GS-700 Imaging Densitometer5-9Fig. 5-8. Entering a custom resolution (with Oversample selected).Image File SizeImage File Size (under Select Resolutio

Quantity One User Guide5-10Save After Scan, the file will not be saved until you select Save or Save As from the File menu.5.6 CalibrationIf you have i

GS-700 Imaging Densitometer5-11described below. You do not need to change the values in the reflective step tablet form; you can use the default values

Quantity One User Guide5-12Fig. 5-10. Step Tablet dialog box.The dialog box will indicate whether the displayed form is for the transmissive or reflect

GS-700 Imaging Densitometer5-13Finally, enter the values in the appropriate fields under the Diffuse column. After the step tablet is scanned, the soft

Quantity One User Guide5-145.6.b Calibration SettingsAfter you have entered the step tablet values, you can immediately calibrate by clicking on the C

GS-700 Imaging Densitometer5-15Auto Save After ScanTo automatically save any scan you create, click on the Auto Save After Scan checkbox.With this che

Quantity One User Guide5-16

6-16. GS-710 Imaging DensitometerFig. 6-1. GS-710 Imaging Densitometer.Before you can begin scanning images with the GS-710 Imaging Densitometer®, you