Michael Hooker Microscopy Facility (MHMF.ORG)

Using Volocity

These are terse notes on using Volocity.

1.  Using Volocity

• Start Volocity
• Create or open a library

2.  Loading Images

• Zeiss database
  • File -> Open -> New Library
  •  In the white area of the Library window
    • Right-click
    • Select Create -> Image Sequence
    • A blank Image Sequence window will appear
  • Drag and drop the desired .lsm file into the Image Sequence window
    • Indicate the number of color channels and time/channel naming order (usually "Channels, then Z-series...") when prompted and press OK
    • You should see one thumbnail for each color channel in the Image Sequence window.  You will probably have to expand the window to see them all if there are more than one.
• Leica series
  • File -> Open -> New Library
  • Load image sequences by either:
    • Dragging the .lie file into the white space
  • or
    • In the white area of the Library window
    • Right-click
    • Select Create -> Image Sequence
    • A blank Image Sequence window will appear
    • In a Windows' folder window, highlight all images from .tif series images
    • Drag and drop the group of images into the Image Sequence window
      When prompted,
    • Indicate the number of color channels and time/channel naming order (usually usually "Channels, then Z-series...") and press OK
  • You should see one thumbnail for each color channel in the Image Sequence window.  You will probably have to expand the window to see them all if there are more than one.

• Biorad PIC format
  • Contact Michael
• Free standing tiff files
  • Contact Michael

3.  Displaying orthogonal view (Image tab)

• Cropping
• Changing channel colors - targeting channel -

4.  Rendering

• Mode
• Brightness
• Density (Opacity)
• Black level

5.  Create Movie Sequence

• Right-click in the white space of the Library window
  • Create a new Movie Sequence
• A window “Untitled Sequence” will open
• Insert actions (rotating, zooming, etc), durations, etc.
  • IMPORTANT NOTE:  The orientation of the image as it is displayed in the Image Window is the starting point for the Movie Sequence.
    • To ensure consistent rotation, orientation, etc. in subsequent plays of the movie, always reset the image view to zero rotation. 
    • To reset image view, right-click on the image and select Reset View.
• When movie sequence is complete, select newly created sequence rectangle in the image database
• Go to menu bar item Sequence -> Make Movie
  • NOTE:  This will apply the highlighted Movie Sequence to ALL of the Image Sequence files open from the image database library!
  • The movie will be added to the Library with a folder icon
• Export Movies from created folder
  • Right-click on the Movie file (in the Library Window)
  • Choose Export
    • Select options and choose codec.  On Windows XP 64 bit only the "Microsoft Indeo 1" or "Intel IYUV" codecs are available.  Save in this format and use another program (e.g. QuickTimePro) on another computer to convert to, preferably, uncompressed or the Cinepak codec in order to be compatible with Power Point on a Windows XP (standard 32 bit) computer.  For Apple users convert to a QuickTime format.

		Copyright 2001-08  Dr. M. Chua, Office of Research, University of North Carolina, Chapel Hill, NC 27599
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