TI Workbench Manual

Table of Contents

1. General
   1. What is it?
   2. What you need
      1. Hardware

         Wiring

      2. Software
   3. Menu Bar
      1. Apple Menu
      2. File Menu
      3. Edit Menu
      4. Layout Menu
      5. Window Menu
      6. Misc-Option Menu
      7. other Option Menus
   4. Miscellaneous
      1. Copy Protection
      2. slide text edit
      3. drag and drop operation
      4. file open
      5. Log Window
      6. Layout window
      7. Labnote window/file
      8. Online Help
      9. AppleScript support
         
      10. Optional Key operations
      11. Voice recognition
      12. Terminology
      13. Reference
          
2. Imaging
   1. Concepts
      1. Data Structure
      2. Time Course Plotting
      3. Background Subtraction
      4. Overlay Image
      5. Linking A/D Data
      6. Synchronization
   2. Data Acquisition (on-line)
      1. Full Frame
      2. Sub-Register
      3. Multi ROI
      4. Each Frame
      5. Segment
      6. Filter (optical)
      7. Segments
      8. Take Background
      9. Camera Configuration
      10. Linking with Electrical Recording
      11. exp set
   3. Browsing Data (off-line)
      1. File I/O

         • File Open / Close
         • Save as...
         • Clipboard
         • Export to Igor
         • Export to Microsoft Excel
         • Export to NIH-Image
         • Export to IPLab

      2. Image Browser Dialog
      3. Image Window

         • Length/angle measurement
         • Position tracking
         • LUT range (contrast) optimize
         • LUT range control
         • Image Shift & Rotate
         • Fast Amination
         • Frame selection

      4. ROI Manipulation and Time Course Plot Windows

         • Segment Plot
         • Time Course Plot Window

           • Plot option menu

             • time course plot analysis
             • Event Detection

      5. Image-Option Menu (Global)

         • save back parameters
         • ROI

           show ROI ID...

           ROI shape is fixed

           ROI line thiick:

         • Keep params among segments
         • Log options...
         • Export Image Format...
         • Time Stamp...
         • Display linked AD sweep
         • Direct Print instead of Layout
         • Animation Rate...
         • Select IPLab script
         • Mouse Cursor Shape NOT Change
         • Position Length measure Options...

      6. Image Option Menu (Local)

         1. Average, Bleach, Autofluorescence...
         2. Ratio and [Ca] parameters...
         3. ROI

            duplicate active ROI

            find active ROI

            clear all ROIs

            edit ROI...

            ROI is Oval

            ROI color...

            halt automatic plot update

            automatic ROI set by watershed

            Track Particle

         4. Mirror image
         5. Overlay and Linking...
         6. Correct Gap between F1&F2...
         7. Open Reference [full frame] Image...
         8. Mask...
         9. Analyze

            Analyze...

            Math between 2 images...

            Filter/Math...

            corss-mask between 2 wave length pair...

            Fourier Transform filter...

            Line Compress...

            FRAP analysis

            line FRAP analysis

            correlation of two images...

            Particle tracker...

            QDot tracker...

            watershed segmentation

            cluster analysis...

         10. 3D

             
             

             3D View of a 2D image...

             3D View of Z reconstruction...

             3D View of Time Stack...

             3D View of Image stack...

             3D View in Igor

             PSF (point spread function) fitting...

             Tomography

             Create a Z-compressed image

             Particle Analysis 3D...

             Deconvolution 3D...

         11. sparse image
         12. Plot
         13. Scale...
         14. Rotate...
         15. Make a floating point pixel Image
         16. Divide into F1/F2
         17. Histogram
         18. Change Frame Interval...
         19. Rotate and Shift following frames
         20. Overlay previous frame in red

      7. Data Manipulation
         1. Analyze Data Dialog
         2. Filter Functions (Digital)
         3. 3D Display
         4. particle tracking / QDot tracker
         5. Line Compression
         6. Fit Plane
   4. QuickTime Video Digitizer
3. Electrophysiology
   1. Data Acquisition (on-line)
      1. Oscillo Panel
      2. Stimulator
   2. Browsing Data (off line)
      1. File I/O
         1. File Open / Close
         2. Export to Igor
         3. Import from Igor
      2. A/D Browser Dialog
      3. AD-Option Menu
      4. Peak Detection
      5. Peak Plotting
4. Event Detection
1. Event Detection Panel
2. Event Detection Information Panel
3. Event Ensemble Analysis
   
5. Fluorescence Correlation Spectroscopy (FCS)
   
6. Appendix
   1. Special features for Scion LG3
   
   

Acknowledgment

The author thanks Dr. Lucas Pozzo-Miller for his revision of this manual.

  Please cite: Takafumi Inoue, "TI Workbench, an integrated software package for electrophysiology and imaging", Microscopy, 67:129-143 (2018), doi:10.1093/jmicro/dfy015 (article free access of the publisher is found here).

...to make a printed manual, open "contents.html", "general.html", "imaging.html" and "electrophysiology.html" in a Web browser and print them separately. "history.html" and "index.html" are not worth printing.