Zeiss LSM 880 Manuals

Zeiss LSM 880 Manuals

Manuals and User Guides for Zeiss LSM 880. We have 6 Zeiss LSM 880 manuals available for free PDF download: Operating Manual, Notes On Device Safety And Installation Requirements, User Manual, Basic User's Manual, Quick Operation Manual, Quick Start Manual

Zeiss LSM 880 Operating Manual

Zeiss LSM 880 Operating Manual (690 pages)

Brand: Zeiss | Category: Microscope | Size: 18.18 MB

Table of Contents

Chapter 1 System Operation

7
- Table of Contents
  7
- Convention for the Text in this Manual
  14
- Purpose
  14
- Software
  14
- Backup
  15
- Software Operation
  15
- Hardware Aspects
  16
- Principle of Laser Scanning Microscopy
  16
- Principle of Fluorescence Correlation Spectroscopy
  17
- Principle of Airyscanning
  18
- Optical Diagram of the LSM 880 (Schematic)
  19
- Performance Features of the LSM 880
  20
- Microscope Equipment of the LSM 880
  21
- Computer Hardware and Software
  23
- Startup and Shutdown of the System
  24
- Startup of the System
  24
- The Power Remote Switch
  24
  - Additional Software Tools
    25
- Starting ZEN
  26
- Exiting ZEN Software
  29
- Shutdown Procedure
  29
- Switching System Power off
  31
- Introduction to the Software Application Layout
  32
- Overview on the Screen Layout
  32
- Introduction to ZEN
  33
- Function Elements
  36
- Application Bar
  38
- Menu Bar
  38
- File
  40
- Maintain
  41
  - Set Spline
    41
  - Camera
    42
  - Hardware Administrator
    42
  - Test Grid
    42
- Help - about
  43
- Main Toolbar
  44
- Status Bar
  46
- Left Tool Area
  47
- Tool Groups and Tools
  49
- Context Menu of the Left Tool Area
  50
- Center Screen Area
  51
- Overview of the Center Screen Area
  51
- Context Menu of the Center Screen Area
  52
- Right Tool Area
  54
- Left Tool Area and Hardware Control Tools
  56
- Locate Tab
  57
- Microscope Control Tool for Axio Observer.z1
  59
- Microscope Control Tool for Axio Imager.z2
  66
- Controls for Axio Examiner
  69
- Incubation Tool
  70
- Acquisition Tab
  71
- Configuration Functions
  72
- Smart Setup
  74
- Action Buttons
  79
- Multidimensional Acquisition Settings
  81
- Setup Manager - Laser
  83
- Setup Manager - Experiment Designer
  86
- Setup Manager - Imaging Setup
  90
  - Imaging Mode and Track Definition
    90
  - Filter Cube Selection
    92
  - Objective Selection
    92
  - Stage Control
    93
  - Focus Control
    94
  - HAL Control
    94
  - X-Cite Control
    95
  - Aperture Control
    95
  - Ratio Imaging
    96
  - Laser Control
    96
  - Control Elements of the Imaging Setup Tool
    97
  - Setup Imaging with Airyscan Detector
    105
- Acquisition Parameter - Acquisition Mode
  107
  - Objective Selection
    107
  - Scan Mode
    108
  - Format Selection
    108
  - Averaging and Color Depth Selection
    109
  - Hdr(High Dynamic Range)-Imaging
    110
  - Scan Area Definition
    111
  - Acquisition Mode Functions for LSM
    112
  - Acquisition Mode Settings for Airyscan
    119
- Acquisition Parameter - Channels
  121
- Acquisition Parameter - Focus
  132
- Acquisition Parameter - Focus Devices and Strategy
  133
- Acquisition Parameter - Stage
  137
- Acquisition Parameter - Shuttle and Find
  138
- Acquisition Parameter - Regions
  144
- Multidimensional Acquisition - Z-Stack
  147
  - Performing a Z-Stack Using First/Last Mode
    148
  - Performing a Z-Stack Using Center Mode
    150
  - Performing a Z-Stack Using a Z-Piezo
    152
  - Optimize Sectioning and Step
    153
  - Correction
    154
  - Z-Stack Settings for Airyscan
    155
- Multidimensional Acquisition - Bleaching
  156
- Multidimensional Acquisition - Tile Scan
  158
- Scan Overview Image for Tiling
  160
- Multidimensional Acquisition - Time Series
  161
  - Interval Time
    161
  - Marker
    163
  - Start
    165
  - End
    167
- Multidimensional Acquisition - Positions
  168
  - Position List
    168
  - Sample Carrier
    169
  - Setting Individual Offset Values for Positions in Position List Mode
    172
  - Lowering Objective When Moving the Stage
    172
  - Scan Overview Image
    173
- Multidimensional Acquisition - Information on Experiment
  173
- Multidimensional Acquisition - Auto Save
  174
- Image Optimization
  175
  - Requirements
    175
  - Defining the Scan Parameters
    177
  - Defining the Detection Parameters
    177
  - How to Optimize Image Quality
    178
  - How to Optimize Imaging with Airyscan
    179
- FCS Tab
  181
- Setup - Laser
  183
- Setup - Light Path
  183
  - Light Path for 2 Channel Module (Big.2 on DC out Port)
    185
  - NDD Light Path (Big.2 as NDD)
    187
  - Light Path for 32 Channel Module
    189
  - Selection of Laser Lines
    190
  - Pinhole Adjustment
    192
- Setup - Acquisition
  196
- Setup - Fit
  198
  - Defining a New Model
    200
  - Correlation Options
    201
  - Model Equations
    202
  - Definition of a Model
    219
  - Pch
    228
  - Formula
    229
- Setup - Correlator
  230
- Navigation - Stage
  234
- Navigation - Sample Carrier
  235
- Navigation - Focus
  237
- Multidimensional Acquisition Tools - Time Series
  242
- Multidimensional Acquisition Tools - Positions
  244
- Navigation - Incubation
  253
- Multidimensional Acquisition Tools - Information on Experiment
  254
- Action Buttons for FCS
  255
- Method Tool
  256
- Activation Tab Area
  259
- New
  259
- Count Rate
  260
- X-Y-Z Scan
  262
- Snap
  265
- Start Experiment
  265
- Taking FCS Measurements
  266
  - Start and End of a Measurement
    269
  - Loading Stored Data Files
    273
  - FCS Correlation Diagram
    274
  - Image View Controls - Correlation Tab
    277
  - Image View Controls - Table Tab
    279
  - Saving Correlation Results
    284
  - Coincidence
    286
  - Fit
    287
  - Print
    296
  - 5.3.21.10 Information
    298
- General Structure of the Processing Tab
  299
- Processing Tab
  299
- Processing - Airyscan Processing
  303
- Processing - Maximum Intensity Projection
  306
- Processing - Color-Coded Projection
  307
- Processing - Image Calculator
  308
- Processing - Average
  310
- Processing - Filter
  311
- Processing - Linear Unmixing
  314
- Processing - Ion Concentration
  319
  - Single Wavelength Dyes - Offline Calibration
    321
  - Ratiometric Dyes
    322
- Processing - Correlation
  325
- Processing - Modify Series
  326
- Processing - HDR-Imaging
  327
- Processing - Stitch
  331
- Processing - PALM
  332
  - PALM - Convert to Image
    333
  - PALM - Import PALM Molecules
    334
  - PALM - Localization Precision
    335
  - Palm - Palm
    336
  - PALM - Remove PALM Outliers
    344
- Processing - Particle Tracking
  345
- Processing - Experimental PSF
  347
- Processing - Structured Illumination
  351
- Processing - Channel Alignment
  360
- Processing - Lightsheet Processing
  367
  - Dual Side Fusion
    367
  - Multiview Processing
    370
  - Online Multiview Processing
    387
- Processing - Copy
  388
- Processing - ICS
  390
  - Detrend
    390
  - Remove Structure
    391
  - ICS Correlation
    392
  - Map Filter
    393
  - Nandb Analysis
    394
- Processing - Adjust
  397
  - Burn in Brightness and Contrast
    397
  - Interpolate Brightness and Contrast
    398
  - Channel Shift
    399
  - Shading Correction
    400
- Maintain Tab
  401
- Maintain - Adjust Pinhole and Collimators
  402
  - Pinholes Section Panel
    403
  - Collimators Section Panel
    404
  - How to Adjust the Pinhole and Collimator
    405
- Maintain - Objectives
  408
  - Objective
    408
  - Select Objective
    409
  - Add Objective
    410
  - Remove Objective
    411
  - Show/Edit Objective
    411
  - Focus Speed
    412
  - Parfocal Correction
    412
- Maintain - Filters
  413
- Maintain - Airyscan
  414
- Options - System Options
  415
  - System Options - Load Configurations
    416
  - System Options - Reuse
    416
  - System Options - Hardware
    417
  - System Options - Image Display
    418
- Options - FCS Options
  419
  - FCS Options - Data
    419
  - FCS Options - Measure
    423
- Options - Service
  424
  - FCS Options - Auto Save
    424
- Center Screen Area / Image Containers - Display and Image Analysis
  425
- General Structure
  425
- Structure and Functional Concept of the Center Screen Area and the Image Display Container
  425
- Container Configuration with the Container Context Menu
  429
- Dimensions
  430
- View
  430
- Display
  433
- Player
  434
- Graphics
  435
- Preview View
  438
- Split View
  439
- Gallery View
  442
- Airyscan - View Option Tab Dimensions
  443
- Airyscan View
  443
- Airyscan - View Option Tab Display
  444
- Airyscan - View Option Tab Airyscan
  445
- Ortho View
  449
- Ortho - Select Function
  450
- Ortho - Distance Function
  451
- Cut View
  452
- D View
  453
- View
  455
- Shadow Projection
  457
- Transparency Render Mode
  460
- Maximum Mode
  461
- Surface Render Mode
  461
- Mixed Render Mode
  462
- Clipping Planes
  463
- Flying Mode
  467
- Rendering Settings in Visartplus
  467
- Series
  469
- Interactive Measurements
  471
- Settings
  472
- Options
  473
- View - Basic
  474
- Histogram View
  475
- Colocalization View
  478
- How a Scatter Diagram Is Generated
  480
- Colocalization Coefficients
  481
- Quantitative Colocalization Parameters Shown in the Data Table
  481
- Overlap Coefficient, Overlap Coefficient after Manders
  482
- Profile View
  482
- Shuttle and Find View
  485
- Mean of ROI: Additional View Type for Time Series
  488
- Kinetic / FRAP View: Additional View Type for Time Series
  492
- Lambda Coded: Additional View Types for Lambda Mode
  498
- Unmixing View
  500
- Automatic Component Extraction
  505
- FRET View
  507
- Tools in the FRET View Options Control Block for Acceptor Photobleaching
  509
- Tools in the FRET View Options Control Block for Sensitized Emission
  511
- Raster Scanning Image Correlation Spectroscopy (RICS)
  514
- Access to RICS
  515
- Control of View Functionalities
  515
- Correlation Functionalities
  516
- Display Functionalities
  519
- Fitting Functionalities
  526
- Model Functionalities
  529
- Polarization Imaging
  533
- Imaging Setup for Polarization Imaging
  534
- Determination of G-Factor
  535
- Obtaining an Anisotropy Image
  536
- Information View
  538
- General
  540
- Right Tool Area, Data Management and Storage
  540
- ZEN File Browser
  541
- Gallery View of the ZEN File Browser
  544
- Form View of the ZEN File Browser
  546
  - Table View of the ZEN File Browser
    547
- Images and Documents Panel
  548
- Opening of Files Via the "Open" Command in the File Menu
  551
- Save
  551
- Export of Images
  552
- Index
  553
Chapter 2 Macros and Visual Basic

559
- Macro Language
  561
- Macros
  561
- VBA Version
  561
- Edit Macro Function
  562
- Macro Control
  562
- Assign Macro to the Macro List
  565
- Editing and Debugging of Macros
  566
- Overview of Available Macros
  567
- Sample Macros
  568
- Excitationfingerprinting
  569
- Concatenateimages
  572
- Open / Close the Visual Macro Editor Window
  573
- Visual Macro Editor
  573
- Function Description
  574
- Editing a Macro
  581
- Programming for LSM: Starting Points
  584
- VBA Programming
  584
- VBA Programming for LSM
  584
- Object Browser
  585
- Glossary
  586
- Programming with the Lsm5Vba Interface
  586
- Introduction
  588
- Programming with the VBA-GUI Interface
  588
- Recording a Macro
  589
- Structure of a VBA-GUI Command
  589
- Selecting and Managing Image Documents
  590
- Technical Note
  590
- Access to Images
  591
- Backup Recording Settings
  591
- Event Handling
  591
- Example Macros
  591
- Export, Save and Load
  591
- Vba-Gui Api
  592
Chapter 3 Additional Software Tools

593
- Stand Select
  594
- Calibration Objective
  595
- Systemmaintenance Tool
  595
- Starting the Maintenance Tool
  596
- General Operation of the Maintenance Tool
  597
- ZEN Configuration Tool
  599
Chapter 4 Annex

603

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