Tile Scans1. To do a tile scan, first click Tile Scan, a Tile Scan boxshould appear on the right if it doesn’t scroll down onthe left until you see it listed under MultidimensionalAcquisition.2. If you would like to move the tile scan box, clickthe undock button3. Under the Centered grid tab choose thenumber of Horizontal and Vertical tiles youwould like to use.4. Enter an overlap of 10%5. Click the start experiment tab13

User guide overview

Setting up configurations on your own

Acquisition mode- Recommended settings

Time Series

Z-Stacks

Adding a DIC Transmitted Light Image

Kohler Illumination

Incubation

Calibration for Airyscan

Zeiss LSM 880 User Manual

PURPOSE

Backup

HARDWARE ASPECTS

Principle of Fluorescence Correlation Spectroscopy

Principle of Airyscanning

Optical Diagram of the LSM 880 (Schematic)

Performance Features of the LSM 880

Microscope Equipment of the LSM 880

Computer Hardware and Software

STARTUP AND SHUTDOWN OF THE SYSTEM

Additional Software Tools

Starting ZEN

Shutdown Procedure

Switching System Power Off

INTRODUCTION TO THE SOFTWARE APPLICATION LAYOUT

Introduction to ZEN

Function Elements

Application Bar

File

Maintain

Camera

Help – About

Main Toolbar

Status Bar

Left Tool Area

Tool Groups and Tools

Context Menu of the Left Tool Area

Center Screen Area

Context Menu of the Center Screen Area

Right Tool Area

LEFT TOOL AREA AND HARDWARE CONTROL TOOLS

Locate Tab

Microscope Control Tool for Axio Observer.Z1

Microscope Control Tool for Axio Imager.Z2

Controls for Axio Examiner

Incubation Tool

Acquisition Tab

Configuration Functions

Smart Setup

Action Buttons

Multidimensional Acquisition Settings

Setup Manager – Laser

Setup Manager – Experiment Designer

Setup Manager – Imaging Setup

Filter Cube Selection

Stage Control

Focus Control

X-Cite Control

Ratio Imaging

Control Elements of the Imaging Setup Tool

Setup Imaging with Airyscan Detector

Acquisition Parameter – Acquisition Mode

Scan Mode

Averaging and Color Depth Selection

HDR(High Dynamic Range)-Imaging

Scan Area Definition

Acquisition Mode Functions for LSM

Acquisition Mode Settings for Airyscan

Acquisition Parameter – Channels

Defining Channels and Tracks

Ratio Channels

Using GaAsP Detectors and the temperature controlled side PMT for Photon Counting Imaging

Channel Settings for Airyscan

Acquisition Parameter – Focus

Acquisition Parameter – Focus Devices and Strategy

Acquisition Parameter – Stage

Acquisition Parameter – Shuttle and Find

Acquisition Parameter – Regions

Multidimensional Acquisition – Z-Stack

Performing a Z-Stack Using First/Last Mode

Performing a Z-Stack Using Center Mode

Performing a Z-Stack Using a Z-Piezo

Optimize Sectioning and Step

Correction

Z-Stack Settings for Airyscan

Multidimensional Acquisition – Tile Scan

Scan Overview Image for Tiling

Multidimensional Acquisition – Time Series

Marker

Start

Position List

Sample Carrier

Setting Individual Offset Values for Positions in Position List Mode

Scan Overview Image

Multidimensional Acquisition – Auto Save

Image Optimization

Defining the Scan Parameters

How to Optimize Image Quality

How to Optimize Imaging with Airyscan

Setup – Laser

Light Path for 2 Channel Module (BiG.2 on DC out port)

NDD Light Path (BiG.2 as NDD)

Light Path for 32 Channel Module

LSM 880

Brief Description

Suggestion for "Materials and Methods

People and Contacts

Optics

Objective

Filter-Sets for Incident Light

Additional Equipment

System Overview

System Protocols

Shutdown

ZEN 2.3 (black edition) Guidelines

Sample Localization

Image Acquisition

Lasers

Acquisition Mode

Channels

Definite Focus 2

Positions