under Y Axis Caption.
¾ In the X Axis field enter the value
"0" under Precision, to display the timepoints as integer values.
¾ In the Legend field switch off the function Legend Visible.
¾ In the Caption field enter a title under Chart Caption, e.g.
"Fluorescence intensity". The mean gray values of each individual cell at each timepoint will be displayed.
Image Analysis
The X-Y line chart will be displayed. You can save the chart settings by clicking on the Save As button.
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¾ To save chart settings click on the Save As button in the Chart View of the data table. Enter a name for the chart, e.g. "line chart".
¾ To reset chart settings click on the Reset button.
¾ To import chart settings, use the icon in the report's design mode.
Image Analysis
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¾ First, generate a data table containing several measurement values, e.g.
by measuring an image interactively. Click on the Load button in the chart view.
Alternatively you can also call up the Create Data Chart function from the Evaluate menu.
¾ Select "Use External Settings" under the Data settings type parameter.
¾ Then select your file containing the settings under the External chart settings file parameter.
¾ Now make the necessary adaptations.
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¾ In the Chart View of the data table click on the Create Image button and enter a name. The chart will be saved in bmp format.
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¾ In the chart view of the data table, click on the Create EMF button and enter a name. You can choose between two formats: EMF (enhanced meta file) and WMF (Windows meta file).
Alternatively you can also call up the Create Data Chart function from the Evaluate menu.
¾ Select "Use External Settings" under the Chart settings type parameter to select your file under External chart settings file or select "Use Settings From Table" if you wish to adopt the settings from the table.
Image Analysis
Documentation
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Documentation is probably the most important part of your work. This term is often used to cover a number of different procedures:
In one case it may simply be a question of saving image files under a definable name; in others it may be a question of storing additional information with the images, so that the conditions of acquisition can be traced and recreated identically, or so that individual images can be found again quickly using this additional information.
Even in the basic version of AxioVision, the Image Browser offers a wide range of options that enable you to manage your images efficiently.
Additionally you can save your images in a folder-based archive.
Via the AxioVision module Asset Archive, you can archive even extremely large quantities of data.
Note:
• Important information about "Saving" can be found in chapter 8.2 "User and File Administration".
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The AxioVision ZVI image file format is central to documentation with AxioVision. Compared to external formats, such as BMP, JPG, TIF etc., the ZVI format offers you numerous advantages:
Saving without loss of quality. AxioVision also saves the current display settings for brightness, contrast and gamma value, without modifying the original data. You can, therefore, reactivate the original display of the image at any time. For external formats, you either have to go through the laborious process of finding the relevant display again or
Documentation
the pixel information has to be saved in modified form. However, in this case the original data are lost.
Incorporation of additional data (e.g. microscope and camera configurations, comments, information on the sample etc.).
Separate saving of image and annotations. This means that annotations can also be changed or deleted at a later time. When external formats are used, annotations have to be "burnt" into the image. However, they can then no longer be deleted or changed. In this case, of course, the pixel data beneath the annotations are overwritten.
Incorporation of measurement data for interactive measurements into the image file.
Management of all data in a single file. This makes it much simpler to handle the files, particularly when working with multidimensional images.
If you use external formats, every single image has to be saved separately.
This can quickly result in several hundred individual image files.
None of the above features are available with other formats. In short, the ZVI format has been specially developed for use in the field of digital microscopy.
This is not the case with any of the other formats.
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AxioVision gives you the option, for images saved in external formats, saving all additional information (additional data, annotations, interactive
measurements etc.) separately from the actual image data. An additional file is created, containing these data, for each image. The format of the file is XML. This XML file is saved in the same folder as the image. The name of the XML file is composed of the name of the image + the extension + "XML".
Therefore, if the saved image is called "Testimage.jpg", a file is generated with the name "Testimage.jpg. meat.xml", which then contains all the additional information.
Documentation
When you open an image with AxioVision that has been saved in an external format, the system will always check automatically whether a file containing the corresponding additional data is present. If one is, these data are read out and displayed accordingly. Of course, this only applies if you are working in AxioVision. When you open an image such as this in a different image processing program, the image is displayed without the additional information.
To save an image with a format larger than 8 bits such that it can be displayed in another application program just like it is displayed in AxioVision, we recommend that you activate the Apply display mappings check box when saving the image (File ⇒ Save As). Please note, however, that this will change the pixel values.
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In principle, multidimensional images can be saved using the standard function for saving images (File ⇒ Save As). Images can also be saved in external formats using this function. For multidimensional images, however, all single images then have to be saved in separate files. In order to retain an overview, only the first image is saved under the specified name and folder for each multidimensional image. A separate subfolder is created for the single images that belong with it:
A MosaiX image saved as a jpg file. The single images are saved in the MosaiX TMA.jpg_Files folder.
An XML file with the additional information is also saved in the folder with the single images. The XML file containing the additional information always bears the name "_Meta.xml":
Documentation
Subfolder containing single images and XML file
When you open an image with AxioVision that has been saved in an external format, the system will always check automatically whether such a folder is present. If one is, the single images are read out and combined to form a multidimensional image. In the course of this process, the information from the "_meta.xml" file is analyzed.
Note:
• The File ⇒ Export function offers special functions for saving multidimensional images. These include, for example, functions for generating video formats or special functions for saving multichannel fluorescence images.
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The Image File Browser allows you to display the images contained in the folders on all of your PC’s drives as a gallery or list, or with a form for entering additional data; you are able to search for and load images and view a slide show. The image browser is a convenient, easy-to-use tool to help you manage your images.
To open the image browser, select File ⇒ Image File Browser.
Documentation
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The left-hand side shows your system’s folder structure, in the familiar Microsoft Windows Explorer format.
The Image File Browser can be operated fully using the functions on the toolbar.
If you select a particular folder, all the image files it contains are displayed automatically in the selected mode (here Gallery mode).
Documentation
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Refreshes all views.
Opens the dialog window Scan drive.
Creates a new folder or edits an existing one.
Loads the selected image(s) from the archive.
Moves to the first record.
Moves to the previous record.
Moves to the next record.
Moves to the last record.
Deletes the currently selected record.
Selects the Data Grid mode.
Selects the Form mode.
Selects the Gallery mode.
Runs the slide show using all records. To stop the slide show, press the Esc key or right-click in the image and deselect Slide show.
Runs the slide show using selected records. To stop the slide show,
Documentation
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Grid View
Displays the image files contained in the selected folder in grid view.
Gallery View
Displays the image files contained in the selected folder in gallery view.
Form View
Displays the image files contained in the selected folder in form view.
First, Previous, Next, Last
Selects the first, previous, next or last image in the selected view.
Load Image
Loads the selected image.
Purche deleted files Purches the deleted image files from the cache.
Documentation
32x32, 64x64, 128x128 Selects the size of the image files displayed.
Slide show
Shows all image files as a slide show.
Slide show (selected)
Shows all selected image files as a slide show.
Properties
Opens the image’s property window.
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First, Previous, Next, Last
Selects the first, previous, next or last image of the selected view.
Use Timer Activates the timer: the slide show automatically proceeds to the next image or
Deactivates the timer: in this case use the arrow keys on the keyboard to go to the next (⇒) or previous (⇐) image.
Slide show Stops the slide show.
Auto Zoom Continuously adjusts the zoom factor of the image display to the size of the window.
Documentation
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A form is used to enter data and to display information on the monitor.
To display image information and enter additional information switch to the Form view by clicking on the icon. In the Form view, the form
"Archive.zvf" is used:
The form "Archive.zvf".
This form must be in the folder Programs\Carl Zeiss Vision\AxioVision4\0009\Templates\Form.