Uvp Life Science Manuale Utente

Life Science Software Installation and User Guide • Doc-It®LS Image Acquisition Software • Doc-It®LS Image Acquisition and Analysis Software •

Table of Contents ix Circle Radius ...

LS Software User Guide 86 Camera Camera Functions Functions under the Camera menu button include internal camera settings to control the image capture

Acquire Images 87 Exposure Time Adjusts the time for how long the camera should expose the image and collects light from the sample. Various arrows

LS Software User Guide 88 Post Processing Some cameras may have the post processing functions. Used for longer exposures to produce a high-quality i

Acquire Images 89 Shows the default camera settings. Click the Preferences button to open a Preferences - Camera window to modify default settings.

LS Software User Guide 90 Camera Integration Integration is the term used to mean the length of time the camera is exposed to incoming light. Integr

Acquire Images 91 • Fifth: 20s • These five pictures will be placed inside a sequence file, and can be viewed in the Player to select the perfect

LS Software User Guide 92 Dynamic Integration Used when the integration time offered by the camera is not enough for a long exposure. In this mode, L

Acquire Images 93 Binning Modes Binning is an advanced feature provided by most UVP cameras. "Binning" literally means to "bin" o

94 Perform 1D Analysis 1D Analysis Action Tab Overview The 1D Analysis Action Tab provides the means to perform 1D Analysis on a captured or demo ima

Perform 1D Analysis 95 • Straighten Selected Lane • Auto Curve Selected Lane • Settings • Mass Unit • Background Color • Force Lanes Straight •

LS Software User Guide x Invert Image ...

LS Software User Guide 96 • Edit Lanes and Bands • 1D Analysis Settings and Preferences • Viewing and Printing 1D Gel Analysis Related Topi

Perform 1D Analysis 97 Lanes and Bands Finding Lanes and Bands This section identifies the step-by-step processes for automatically finding lanes and

LS Software User Guide 98 • If the results are not satisfactory, keep the window open and adjust the search parameters as described in the following

Perform 1D Analysis 99 If the basic automated search did not find all lanes, the parameters may be adjusted. Under Search options in the Find lanes

LS Software User Guide 100 Lane and Band Information First Find Lanes and Bands to view information on lanes and bands. The software allows users to

Perform 1D Analysis 101 Lane Properties also offers the following information: • Lane ID • Unit Name of Mass • Intensity Maximum • Intensity

LS Software User Guide 102 The Image Window also displays various 1D gel objects and allows editing with the mouse. • Lane Curve Lines: Vertical lin

Perform 1D Analysis 103 Add Lanes and Bands The software allows the user to add lanes and bands manually. Add Lanes Method No. 1: From the Find Lanes

LS Software User Guide 104 • Click the left mouse button to place the new lane. • When finished placing the new lanes, click Edit Objects to disab

Perform 1D Analysis 105 • Delete Lanes and Bands • Edit Lanes and Bands • Clear All Lane and Band Information • Lane and Band Information • Viewi

Table of Contents xi Background Subtraction ...

LS Software User Guide 106 Delete Lanes and Bands Delete Lanes • Click 1D Analysis Action Tab > Find Lanes and Bands menu • Click on the lane t

Perform 1D Analysis 107 Edit Lanes and Bands Note: Image analysis must be performed prior to editing the lanes and bands. Move Lanes and Bands The so

LS Software User Guide 108 Place Bands Exactly • Click 1D Analysis Action Tab > Find Lanes and Bands menu. • Select the band to resize. Contro

Perform 1D Analysis 109 Related Topics: • Add Lanes and Bands • Delete Lanes and Bands • Clear All Lane and Band Information • Lane and Band In

LS Software User Guide 110 Lane Profile Lane Profile Overview The 1D Analysis Action Tab > Lane Profile menu provides the following tools: • M

Perform 1D Analysis 111 • Rolling disc • Joined valleys • Area between lanes • Show corrected image • Rf (Retardation factor) • Edit objects •

LS Software User Guide 112 Molecular Weight Perform Molecular Weight Calibrations Overview Molecules in an electric field migrate through a gel matr

Perform 1D Analysis 113 Apply a Molecular Weight Standard to a Lane • Calibrate a Lane • Stretch Factor • Manual Placement of Weights • Exact Pla

LS Software User Guide 114 • A new screen appears Step 2: Calibrate MW standard. • In the Step 2 screen, the weights can be adjusted to match the b

Perform 1D Analysis 115 • Adjust the stretch factor (scaling) between weights until the other weights match their appropriate bands. Adjust it using

LS Software User Guide xii Glossary ...

LS Software User Guide 116 Changing Molecular Weight Settings • Add Molecular Weight Standard to a Library • Edit Molecular Weight Standard to a Li

Perform 1D Analysis 117 Edit Molecular Weight Standard in the Library • First identify all lanes and bands in the image. • Select the Lane to calib

LS Software User Guide 118 Background Correction Background Correction Options Background correction is necessary to account for possible variable i

Perform 1D Analysis 119 Note: Straighten lines by using right-clicking the mouse button to open the shortcut menu. Joined Valleys Selecting this

LS Software User Guide 120 Rolling Disc Picture turning the lane profile graph upside and then rolling a ball over the new top. Everything the ball

Perform 1D Analysis 121 • Finding Lanes and Bands

LS Software User Guide 122 Concentration Lane Profile Graph • Use the Lane Profile Graph • Display Lane(s) • Axis Options • Display Options • Mo

Perform 1D Analysis 123 Axis Options By default, the x-axis displays Pixels and the y-axis displays Intensity. However, after calibrating molecular

LS Software User Guide 124 Display Options for Details Underneath the graph and the lane image the following are available: • Band Peaks: Selecting

Perform 1D Analysis 125 • Click on OK. The Lane Profile window closes and bands are now in their new positions. Resize Bands Using the Lane Profile

LS Software User Guide 126 Concentration Calibration • Graph Options • Change Unit Type • Select Unit Type • Add, Edit or Delete a Unit Type

Perform 1D Analysis 127 Change Unit Type In the Calibration Graph, the Unit Type plotted along the y-axis is given as Concentration as the default .

LS Software User Guide 128 • To add a unit type, click the Add button. • A New Unit field will appear and be highlighted. Type in the name of the u

Perform 1D Analysis 129 Edit Data Points To edit the data points that already selected: • Click on the Data Points tab of the Concentration window

LS Software User Guide 130 Once the data points are selected to graph, the software allows the user to select the type of curve or line to fit to the

Perform 1D Analysis 131 Retardation factor (Rf) Lines • Automatic Rf Line Determination • Adjust an Automatic Rf Line • Add Rf Lines Manually • M

LS Software User Guide 132 Add Rf Lines Manually The Software allows users to add Rf lines to an image with less than two lanes that are calibrated t

Perform 1D Analysis 133 Remove All Rf Lines • Click 1D Analysis Action Tab > Lane Profile menu. • Click Delete all Rf line(s).

LS Software User Guide 134 Dendrogram Analysis Performing Dendrogram Analysis • Overview • Generate Dendrogram Graphs • Modify Dendrogram Graphs

Perform 1D Analysis 135 Generate Multi-Image Dendrogram Graphs • Finding lanes and bands must be performed first on all images to be used in the gr

1 Welcome Welcome to LS Software Guide UVP's Life Science (LS) software allows users to acquire, enhance, analyze and document images in a simp

LS Software User Guide 136 Similarity and distance between lanes Based on band matching, the similarity between two lanes L1 and L2 can be evaluated

Perform 1D Analysis 137 Linkage Rules A linkage rule offers a method to calculate a measure of the distance between two clusters. • Single Linkage (

LS Software User Guide 138 • Weighted pair-group method centroid (WPGMC): This is identical to UPGMC except that the number of items in a cluster is

Perform 1D Analysis 139 1D Analysis Settings To access analysis Preference settings, go to the 1D Analysis Action Tab, click on the Settings menu but

LS Software User Guide 140 • Mass unit: Same as above • Background color: Allows the user to choose a background for the image. For example, if t

Perform 1D Analysis 141 Results Viewing and Printing 1D Gel Analysis • Overview • Lane and Band Information • Lane Profile Graph • Results Dat

LS Software User Guide 142 Results Data Explorer Aside from viewing graphs and information windows about the lanes and bands, the software also offer

Perform 1D Analysis 143 Printing Data Explorer Tabular Reports • Print Reports • Export Reports • Report Types • Fixed Standard Reports Print Dat

LS Software User Guide 144 • To Excel • To CSV • Click the To Excel or To CSV button. • Name the file and click Save. Report Types • All info

Perform 1D Analysis 145 • Intensity of the band, including its maximum, volume, percentage of the lane, and mass; and • Concentration of the band,

LS Software User Guide 2 Capturing Images • Acquisition Performing Analysis Functions on Images • 1D Analysis • Area Density • Counting Colo

LS Software User Guide 146 Clear Clear Lane and Band Information To clear the 1D Analysis information, click onto the Clear button from the 1D Analys

147 Perform Area Density Analysis Area Density Action Tab Overview The Area Density Action Tab provides the means to generate Area Density analysis o

LS Software User Guide 148 • Define Background • Define User Background • Rectangle • Ellipse • Polygon • Freeform • MagicWand • Modify Backgr

Perform Area Density Analysis 149 Perform Area Density • Overview • Perform Area Density • Define the Region of Interest (ROI) • Use Magic Wand

LS Software User Guide 150 Green circle turns red Use Magic Wand to Define ROI • Click onto Define Region to start the ROI identification pro

Perform Area Density Analysis 151 Select Multiple Bands and Regions in the Image Users may want to determine the area density of more than one band

LS Software User Guide 152 • Define Image Scale

Perform Area Density Analysis 153 Area Density Settings To change Area Density settings go to the Area Density Action Tab > Settings menu button an

LS Software User Guide 154 Define Area Density Background • Define Background • Delete Background Region • Modify and Existing Background Region De

Perform Area Density Analysis 155 Background box turns blue Delete Background Region To delete a background region: • Click onto Delete Backgrou

Welcome 3 Minimum System Requirements Operating System Requirements • Windows XP Professional with Service Pack 2 or higher, Windows 7, 8 and Vista

LS Software User Guide 156 Estimate Region Volume Estimate Region Volume is useful in determining the volume occupied in a cancerous growth in an ani

Perform Area Density Analysis 157

LS Software User Guide 158 Calibration Curves • About Intensity Calibration Curves • Optical Density • Grey Levels • Types of Calibration Curve •

Perform Area Density Analysis 159 Grey Level calculations are used when the sample is imaged using reflective light. Grey level of an area is simply t

LS Software User Guide 160 • The scroll-box Number of Samples lets users select the total numbers of samples to display on the X-axis of the curve. B

Perform Area Density Analysis 161 • The Add Graph Point window appears. Area Amount can be added to each Area # defined in the captured image. Area

LS Software User Guide 162 • In the Display settings, users may change the appearance of: • Anchor lines • Point values • Background color •

Perform Area Density Analysis 163 Reporting and Printing Area Density Results Area Density Results and Data Below is a definition of the Area Densit

LS Software User Guide 164 regions Mean Average of the corresponding attribute, among all regions Std. Dev. Standard Deviation of corresponding at

165 Perform Colony Counting Colony Count Action Tab Overview The Colony Counting Action Tab contains information that allows users to count colonies

LS Software User Guide 4 Registering the Software • Overview • Types of Registration • On the Fly Activation • Already Have an Activation ID • Re

LS Software User Guide 166 Clear: When a colony image is open, click the Colony Counting tab and the Clear menu button to clear all analysis. Gettin

Perform Colony Counting 167 Colony Counting Settings Click the Colony Counting Tab, select the Settings menu button, and then click Analysis Display S

LS Software User Guide 168 Colony Marking To change the Colony Marking, click the drop down arrow to select from: • None: Shows no pictorial indica

Perform Colony Counting 169 Count Colonies Counting Colonies - Options The software offers several functions for counting colonies. • Automatic Cou

LS Software User Guide 170 Automatic Counting Automatic Counting allows users to generate a colony count for a Petri dish or plate using the Automatic

Perform Colony Counting 171 • Identify by Color Counting • User Defined Template Counting • Click and Add Counting • Loading and Saving Images

LS Software User Guide 172 Click and Add Counting The Click and Add counting method allows users to count colonies by clicking onto each colony in the

Perform Colony Counting 173 • Automatic Counting • Identify by Color Counting • User Defined Template Counting

LS Software User Guide 174 Set-Up Colony Counting Templates Templates allow the user to set parameters for colonies most frequently counted in repea

Perform Colony Counting 175 • Define the region of interest by clicking the Define Counting Region button. • Use the white corner boxes to adjust

Welcome 5 • A new form will appear. Complete all required information on the form. • Fill out the Serial Number located on the CD. The number sh

LS Software User Guide 176 Note: To display only the colonies for a specific class, select the Preview selected item only check box in the Analysis se

Perform Colony Counting 177 To delete a Template, from the User Defined Template list: • Click Identify by Color Count. • On the Step 2 tab, un

LS Software User Guide 178 Counting Using a Predefined Template Before proceeding through the next steps, a template must have been set up and saved u

Perform Colony Counting 179 Edit Colonies Add Colonies Users may add colonies by performing the initial count (Automated Count, Identify by Color Cou

LS Software User Guide 180 Delete Colonies Users may delete colonies by performing an initial count (Automated Count, Identify by Color Count, or Use

Perform Colony Counting 181 Split Colonies Manual Split Colonies Users may split colonies by performing an initial count (Automated Count, Identify

LS Software User Guide 182 • The total colony count will change to add new colonies identified by the split. • If the colony is hard to see, zoom

Perform Colony Counting 183 Merging Colonies Users may merge colonies by performing an initial count (Automated Count, Identify by Color Count, or Us

LS Software User Guide 184 Identify by Color Counting Identify by Color Counting Frequently colonies are identified by their color. The software allo

Perform Colony Counting 185 • The Colony Count Type Selection window will open. • Select Manual Count Plus Template Setup. Click OK. • The Manua

LS Software User Guide 6 • Click Next to continue. • Click the link provided and complete the form to obtain instructions. • Click Finish. Next

LS Software User Guide 186 Identify by Color Counting Step 1: Select Classes Please refer to the Identify by Color Count page before proceeding. De

Perform Colony Counting 187 • Once the first desired colony (or zone) is selected, the new image in the Step 1 of 2: Select classes window will sho

LS Software User Guide 188 • The color of the point selected will also appear in the Analysis Details box (for example: rgb (93, 93, 93). • Conti

Perform Colony Counting 189 Identify by Color Counting Step 2: Finish After completing Identify by Color Count Step 1: Select Classes the software br

LS Software User Guide 190 The software will redirect to the counted image. To view the analysis data, click onto the Results menu button. Relat

Perform Colony Counting 191 Spiral Counting • Perform Spiral Count • Adjust Grid Size and Volume • View, Save and Print Spiral Plate Results • U

LS Software User Guide 192 Adjust Grid Size and Volume To change the overlay grid size: • In the Spiral Plate Analysis window move the Overlay Size

Perform Colony Counting 193 View, Save and Print Spiral Plate Results To view the resulting Data Table analysis for the spiral plate count: • Click

LS Software User Guide 194 User Tips While in the Spiral Plate Analysis window, the user may choose to move the green overlay grid by using the Align

Perform Colony Counting 195 Zone Analysis Zone analysis provides users with zone sizing information which is useful for applications such as inhibiti

Welcome 7 Single-User License Once the software is registered, define the single-user license which allows the software to be used on a single comput

LS Software User Guide 196 Colony Counting Results Colony Counting Reports The results of the colony count can be displayed in the results window. To

Perform Colony Counting 197 Export and Print Colony Results Exporting to Excel • To export data, click on the Results menu button from the Colony C

LS Software User Guide 198 Reporting Colony Class Information Colony class types can be displayed in the Colony Count Results window. To access the

Perform Colony Counting 199 Related Topics: • Reporting Functions

LS Software User Guide 200 Reporting General Colony Information Colony information can be displayed in the Colony Count Results window. To access th

Perform Colony Counting 201 Reporting Colony Statistical Information Statistical colony information can be displayed in the Colony Count Results wind

LS Software User Guide 202 Related Topics: • Reporting Functions

Perform Colony Counting 203 Reporting Colony Distribution Information Distribution information can be displayed in the Colony Count Results window. T

204 Modify Images Image Action Tab Overview The Image Action Tab provides functions to enhance and edit images captured with the UVP system. The

Modify Images 205 Display Control Image Corrections The image Display Control offers features to control how an image looks. Changes made to images u

LS Software User Guide 8 Network-User License A network-user license is only available for VisionWorks software. Once the software is registered, def

LS Software User Guide 206 image is displayed at its original levels). Gamma contrast changes have similar results to regular contrast changes. • In

Modify Images 207 Contrast Enhanced Change Gamma • Slide the Gamma control either left or right, or type a desired Gamma value into the Gamma text

LS Software User Guide 208 Histogram Controls The Histogram Controls offer options for viewing tonal and color information about an image. By default,

Modify Images 209 • In the Options button select: Identical Y-scales, reset zoom or copy graph.

LS Software User Guide 210 Pseudocolor The Pseudocolor applies a false-color spectrum to a monochrome or colored image. Note: If an image is modifie

Modify Images 211 • Fluorescein: Mimics the colors used in the Fluorescein process. • Texas Red: Mimics the colors that appear with a Texas Red sta

LS Software User Guide 212 3D Plots • Using the 3D Plot Function • Viewpoint Tab • Output Tab The 3D Plots function allows the user to see a thr

Modify Images 213 Viewpoint Tab Controls on this tab lets the user set the correct angle of view. Rotation Controls One can rotate the image in Y

LS Software User Guide 214 • New Image: Pressing this button creates a new image in the software with what is visible on the surface plot. This new

Modify Images 215 Annotations Annotations • Overview • Annotation Navigation • Types of Annotation • Creating Annotations • Viewing and Hidi

Welcome 9 • Click Next to confirm the installation of the License Server. • The next screen will require the user to enter an Activation Number

LS Software User Guide 216 • Highlighter: Highlighter annotations work like a highlighting pen by altering the color of the underlying image to draw

Modify Images 217 Create Annotations Create a Text Annotation Text annotations allow users to place labels on an image to describe or to name a feat

LS Software User Guide 218 To delete an annotation: • Click the Toggle edit annotation tool from the Create Annotations menu. • Right click on the

Modify Images 219 Create Line Annotations • Select Image Action Tab > Annotations menu > Create new line annotation. • Click and release a po

LS Software User Guide 220 Create Shape and Highlight Annotations Create a Rectangle, Ellipse, Highlighter Annotation • Select Image Action Tab >

Modify Images 221 View or Hide Annotations The software allows annotations to be viewed or hidden on an image with a single command. • To view annot

LS Software User Guide 222 Modify Annotations • Select Annotations • Edit Text Annotations • Move and Resize Annotations • Rotate Text Annotation

Modify Images 223 Move an Annotation • To move an annotation, select Toggle Edit Annotation Tool if not already selected. • Click on any part of t

LS Software User Guide 224 The Annotation Formatting menu contains the following formatting options: • Color: Pick a color from the list or choose C

Modify Images 225 Synchronize Annotations Annotations can either grow or shrink in size depending on image zoom level, or can remain the same size reg

LS Software User Guide 10 • Click Next. • The next screen will verify the "Port" number to be used. It will be necessary to note this p

LS Software User Guide 226 Measurement Tools The measure tools allows users to measure a portion of the image with regard to length, area or angle.

Modify Images 227 Angle Measure The measure angle tool requires three points to be placed on the image to define an angle. • Choose Image Action

LS Software User Guide 228 Layer Actions The Flatten Layer function embeds annotations and analysis markings in an image. This feature is useful when

Modify Images 229 Multi Image Actions Multi-Image Actions Background Filters Background correction and subtraction tools are filters available throug

LS Software User Guide 230 Image Compositing The Compositing function allows the user to take two or more images and create a composite of the two ima

Modify Images 231 Player (Image Sequences) • Purpose of the Player • Using the Player • Merge Functions • Player Features • Player Options

LS Software User Guide 232 • A new file is generated which includes all open images (file name is untitled). • Save the file as .sqv with a desired

Modify Images 233 Player Features Below is the description for each of the Player’s buttons: BUTTON FUNCTIONALITY Views the next image. View

LS Software User Guide 234 Frame Rate This is the interval (in milliseconds) between two consecutive images that are displayed. For example, a value

Modify Images 235 All the images contained in the active sequence are in the list. The user can Extract (open the specified image in a new window) im

Welcome 11 • Next it will be necessary to obtain the "Server" computer’s IP Address. This address will be used to set-up the other "

236 Create Templates Set-Up Hardware Master Templates Master Templates (also called Presets) enable users to configure specific camera, darkroom and

Create Templates 237 Note: Once a template is created, it can be selected from the Acquisition Action Tab > drop down menu to the left of the New

LS Software User Guide 238 Edit, Synchronize and Delete Templates Edit a Template To edit a template: • From the Acquisition Action Tab, click the

239 Open and Save Images Open and Save Images • Open Images • Save Images • Image File Types Open Images The software will open images in

LS Software User Guide 240 • Click on the File menu and select Save or Save As. The Save window will appear. • Select the file type to use from the

Open and Save Images 241 smaller. Typically, formats that use lossy compression store in much less space than lossless compression formats. By compari

242 Print Reports Print • Printing Image History • File Print Command • Printing Colony Count Results • Viewing and Printing 1D Gel Analysis

Print Reports 243 File Print Command • Go to File > Print and select a printer to print from.

LS Software User Guide 244 Print Image History Reports The software provides several types of reports: • Image Report: Prints the image, using as m

Print Reports 245 • To enter the header or footer text, type new text in the text box and click Preview the pages. There are some special character c

LS Software User Guide 12 • The IP Address is listed and should be noted, as it will be used with every "client" computer’s License Manag

246 Support 21 CFR Part 11 Compliance Supporting 21 CFR Part 11 Compliance • Purpose • Features • Usage Purpose US - Food and Drug Administratio

Support 21 CFR Part 11 Compliance 247 Print an Audit Trail (History) • Open the image for which to print the Audit Trail. • Go to File > Print

LS Software User Guide 248 Related links: • For information on user accounts and passwords, go to: User Administration

Support 21 CFR Part 11 Compliance 249 Image History Each material change to an image is tracked in the software’s Image History feature. Material cha

250 Glossary Glossary • Artifact: In imaging, a flaw caused either by the imaging process or by the hardware itself. For example, dust on the camer

Glossary 251 • PNG: Portable Network Graphics, a common image format. PNG is a lossy compression format that results in very small files. Files store

253 Index 1 1D Analysis Preference Settings ... 141 1D Analysis Settings ... 141 3 3D Plots ...

LS Software User Guide 254 File Print Command ... 245 File Type...

Index 255 Other Settings ... 17, 61 P Paste ...

Welcome 13 • Enter the previously noted IP Address and Port Number form the ”r;Server” computer. Click Finish once the two values have been entered.

LS Software User Guide 14 User Administration • About Secure User Accounts • User Rights • Configure User Accounts About Secure User Accounts

Welcome 15 • Go to the UVPSettings folder inside the Application Data folder. • Have the System Administrator select Allow for all permissions li

ii Table of Contents Welcome ...

LS Software User Guide 16 Change Enables user to change images. To change this setting, click Tasks > Edit Rights. Click or unclick the Change opt

Welcome 17 Configure User Accounts • User Names and Passwords • Add a User • Edit a User • Change a Password or Other Settings • Deactivative/Rea

LS Software User Guide 18 • Click OK. Add a New User • From the menus, click the Advanced menu button then select Configure user accounts to open

Welcome 19 Change a Password or Other Settings • To change a password, click the Advanced menu button then select Configure user accounts to open

LS Software User Guide 20 • Select that user name and click Tasks > Deactivate. A red X will indicate the user is deactivated. To reactivate, clic

Welcome 21 Technical Support UVP offers expert technical support on all of our products. If there are questions about the product’s use, operation or

LS Software User Guide 22 License Agreement End User License Agreement PLEASE READ THE FOLLOWING AGREEMENT CAREFULLY This Agreement is between UVP

Welcome 23 License or otherwise. This License will terminate immediately without notice from Licensor if you fail to comply with any provision of this

24 Navigate the Software Navigating the Software • Main Window • Action Tabs • Menu Buttons Main Window After the software is opened, the menu

Navigate the Software 25 Note: For users with an iBox Explorer2 Imaging Microscope, the menu buttons display differently. Learn more about cap

Table of Contents iii Action Tabs ...

LS Software User Guide 26 Image Windows Each open image in the software workspace will appear in a separate Image Window. Several Image Windows can

Navigate the Software 27 Show the Image in Actual Size To show the image in actual size (no scaling), right click on the image and select View Origin

LS Software User Guide 28 Obtain Image Information • Overview • Display Image Information • Enter Notes • Calibrating Image Scale • Image Hist

Navigate the Software 29 Each image in LS software has a scale associated with it. Scaling information is used to display rulers, measure length and m

LS Software User Guide 30 Menu Buttons Menus and Action Tabs Overview Main Menu Buttons There are four menu buttons that are always available (not dep

Navigate the Software 31 Area Density Action Tab and Menu Buttons Colony Counting Action Tab and Menu Buttons

LS Software User Guide 32 File Menu Button File Menu Overview File menu options are available at any time. The File menu does not need to be accessed

Navigate the Software 33 Open and Save Images • Open Images • Save Images • Image File Types Open Images The software will open images in s

LS Software User Guide 34 • Enter a filename for the image. • Click Save. NOTE: If analysis, annotation, etc. is performed on an original image, t

Navigate the Software 35 Print • Printing Image History • File Print Command • Printing Colony Count Results • Viewing and Printing 1D Gel Anal

LS Software User Guide iv Select a Region ...

LS Software User Guide 36 FTP Transfer The FTP Transfer function allows the user to transfer files from one computer to another. NOTE: The computer

Navigate the Software 37

LS Software User Guide 38 Edit Menu Button Edit Menu Button Overview Edit options are available at any time. The Edit menu does not need to be accesse

Navigate the Software 39 Copy Used on an image, the Copy command copies all or part of the image to the clipboard. Copy an Entire Image • Click

LS Software User Guide 40 Paste This command takes an image from the clipboard and imports it into the software, displaying it in a new Image window.

Navigate the Software 41 • Subtract: subtracts pixels in the incoming image from those in the existing image. Subtract is used primarily to test for

LS Software User Guide 42 Undo and Redo The Undo command will undo the last material change made to an image. Material changes include all manipulati

Navigate the Software 43 Region of Interest (ROI) • About the Selection Tools • Select a Region • Adjust a Region • Cancel a Region About the Sele

LS Software User Guide 44 View Polygon ROI selects Polygonal regions. View FreeForm ROI selects irregular regions. Select a Region • Choose the d

Navigate the Software 45 Image Enhancement Filters Image enhancement tools allow users to highlight important features and remove unwanted signal in

Table of Contents v Acquisition Action Tab Overview ...

LS Software User Guide 46 Blur This filter blurs edges in an image, making them less prominent. Gross (large-scale) detail is more easily observed aft

Navigate the Software 47 Sharpen This filter enhances edges in an image, making them more visible. It is easier to see fine detail after an image has

LS Software User Guide 48 Emboss This filter gives an image a "chiseled in stone" look. Edges take on a three-dimensional (3D) appearance, m

Navigate the Software 49 Remove Noise This filter removes periodic (patterned) noise from an image. Patterned noise is removed by creating a frequency

LS Software User Guide 50 Adjust the Image • Rotate: Rotates the image around its center, useful for aligning images taken with a crooked gel. • Al

Navigate the Software 51 Rotate Function Rotate an image by an arbitrary number of degrees. Rotate is helpful to correct for a misaligned gel. Graphi

LS Software User Guide 52 • Click OK. Tip: Rotations by 90, 180 or 270 degrees do not degrade the image. These operations can be completely reverse

Navigate the Software 53 Align the Image Align the image to a grid by clicking onto the Edit Menu then select Align from the Adjust category of functi

LS Software User Guide 54 Flip Image Flip Horizontally This filter provides a right to left mirror-image. Two clicks of the flip button will return

Navigate the Software 55 Image before Flip Vertically Image after applying Flip Vertically

LS Software User Guide vi View and Use Lane Properties ...

LS Software User Guide 56 Resize Image The Resize filter allows the image to be changed in size. It replicates or merges pixels as appropriate to arr

Navigate the Software 57 Reduce Image to Monochrome The Reduce to Monochrome filter reduces a color image to monochrome. This is primarily useful whe

LS Software User Guide 58 Change Image Depth The Change Image Depth adjustment converts an image bit and color depth when needed. • Click onto the

Navigate the Software 59 Advanced Menu Button Advanced Menu Overview The Advanced menu button contains additional software functions: • Advanced

LS Software User Guide 60 Log Viewer The Log Viewer displays a log of user actions and presents the action list to the user in a log box. • To acc

Navigate the Software 61 Configure User Accounts • User Names and Passwords • Add a User • Edit a User • Change a Password or Other Settings • De

LS Software User Guide 62 • Click OK. Add a New User • From the menus, click the Advanced menu button then select Configure user accounts to open

Navigate the Software 63 Change a Password or Other Settings • To change a password, click the Advanced menu button then select Configure user acc

LS Software User Guide 64 • Select that user name and click Tasks > Deactivate. A red X will indicate the user is deactivated. To reactivate, clic

Navigate the Software 65 Display Loaded Modules This window is typically used for technical support. UVP's technical support department can view

Table of Contents vii Display Options for Details ...

LS Software User Guide 66 Configure Application The function Configure Application shows global application default settings (Preferences). A Preferen

Navigate the Software 67 Rulers Rulers are located at the top and left of each Image window. The rulers show the width and height of the visible po

LS Software User Guide 68 Macros Using Macros • Overview • Macros Navigation • Record Macros • Edit Macros • Play a User-Created Macro Overvi

Navigate the Software 69 • Select a Shortcut Key to execute the macro and provide a Description of the macro, if necessary. • Click onto OK. • A

LS Software User Guide 70 Help Menu Button Help Menu Overview The Help menu contains the following features: • Display help topics • Application i

Navigate the Software 71 Display Help Topics These are some of the help topics available. Simply click through the help topics or search for a word fo

LS Software User Guide 72 Application Information The Application Information function brings up a window which describes the: • Name of the softwa

73 Acquire Images Acquisition Action Tab Overview The Acquisition Action Tab provides the menus to capture images with a UVP imaging system. The Acqu

LS Software User Guide 74 • Preferences • CCD Temperature (for cooled cameras) • Preview, Capture and AutoExposure buttons • Template Presets (ini

Acquire Images 75 Image Acquisition To access the preview and capture buttons, click the Acquisition action tab. Capture an Image To capture an im

LS Software User Guide viii Print Data Explorer Reports...

LS Software User Guide 76 • Best (longer exposure): Exposes the image to the maximum value of the histogram (65,000 gray levels). • Better: Exposes

Acquire Images 77 Using the iBox Explorer Imaging Microscope The Microscope menu will appear when the software connected to an iBox® Explorer Imaging

LS Software User Guide 78 • Click the Edit button. A Filter Set Edit Form window will open. • Change the Filter Name(s) in any of the four position

Acquire Images 79 To select a desired magnification level, click the radio button next to one of the settings. For further discussion on using the mag

LS Software User Guide 80 • Move the imaging platform to a new position. This is displayed as a + on the Location Map. • Click the ID number of the

Acquire Images 81 Lighting/Darkroom/Lens BioLite MultiSpectral Light Source The automated BioLiteTM MultiSpectral Light Source is an added accessory t

LS Software User Guide 82 • Turn on the Light Table to Trans or Epi. Use the Trans option if the light source is below the sample. Use the Epi option

Acquire Images 83 Darkroom Control The software works with a series of darkrooms offered by UVP. The software controls the darkroom lighting and other

LS Software User Guide 84 • Tray Location: Slide bar adjusts the height of the automated lift platform. (Manual platform systems do no have this opt

Acquire Images 85 Lens Control This section contains information on adjusting lens and darkroom parameters to capture an image. To access these func