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Intensity-based thresholding
This page explains how to use intensity-based thresholding (the traditional method) to segment ce...
Machine learning segmentation
This section explains how to use the ML segmentation tool in Imaris. In the Surpass view, cli...
Getting started with Imaris
To load an image in Imaris Make sure you are in the Arena view (see above). Click on Observ...
Image Analysis Workflow
This page details the workflow for service request. Note that all requests for service MUST be su...
8. Bruker TruLive3D Using the photo-manipulation (PM) feature
The Bruker TruLive3D has a photo-manipulation (PM) feature that you can use to ablate specific ...
Recognizing the core
It is essential that the staff and use of the BioFrontiers Advanced Light Microscopy Core is reco...
References and example
The Fiji plugin for annotating movies with custom arrows was developed by Stephan Daetwyler, Carl...
Plugin installation
Complete instructions for plugin installation can be found in this publication. The GitHub page ...
Napari: a fast, interactive viewer for multi-dimensional images in Python
If you are using Python for image analysis already, Napari is a great package to help you visu...
Bruker TruLive3D training protocol
Training Program Bruker TruLive3D Light Sheet Microscope Session 1 – Instrument and Operat...
Using the OPM
The Single Objective Light Sheet Microscope is a custom-designed microscope and is a VERY sensiti...
Sample preparation for the OPM
Good news: Traditional sample preparation! The OPM sample holders are similar to that of other c...
Setting up an experiment on the OPM
This page is a guide to set-up an experiment with the OPM. All experiments on the OPM will be d...
Specifications and primary uses of the OPM
Single Objective Light Sheet Microscope The Single Objective Light Sheet Microscope is also re...
OPM Data processing in Fiji
OPM Data The data generated by the OPM is in TIFF format. Whether you acquire a single image o...
Bruker TruLive3D Data visualization in Fiji
The data generated by the Bruker TruLive3D contains a Fiji header named bdv.h5. Fiji is an open...
6. Bruker TruLive3D Experiment
This page will guide through the steps to set-up a basic experiment. 1. Setting up an experime...
Bruker TruLive3D Sample preparation guidelines
This page contains some tips for sample preparation for the Bruker Trulive 3D. It is not exhausti...
5. Bruker TruLive3D Finding the sample
Make sure you performed the calibration of the system before lowering your sample in the chambe...
Bruker TruLive3D specifications and primary uses
Bruker TruLive3D main specifications The TruLive3D has 4 imaging channels at 405nm, 488nm, 561...