Quantitative Bioimaging Reference Articles

Bioimaging Guide - Online companion website to the paper "A biologist's guide to the field of quantitative bioimaging."

Checklist for publishing images and image analysis developed by the QUAREP community - Community-developed checklists for publishing images and image analysis

Recommended Analysis Software

• FIJI/ImageJ
• Imaris 3D/4D Visualization and Analysis Software
• ilastik Interactive learning and segmentation toolkit

Shading Correction Using BASiC Plugin from FIJI

In this short video, you will learn how to use the BASiC Plugin to remove uneven shading from a phase microscope image. This is a fairly common practice when capturing microscope images and can be quickly and easily performed with this plugin.

Closed Caption Version of Video (14 MB)

Drift Correction Using the Correct 3D Drift Plugin from FIJI

Drift can arise from various sources and is ultimately a distraction to visualizing and analyzing your data. In this video, you will learn how to use the Correct 3D Drift Plugin in order to minimize the drift observed during the acquisition of a time series experiment.

Closed Caption Version of  Video (24 MB)