Audience

• Researchers in academic & industrial laboratories who make active use of optical microscopes, and desire to make image-based quantitative measurements for hypothesis testing, screening, and modeling
• Particular emphasis is placed on fluorescence based multi-dimensional microscopy (3-D confocal/multi-photon, time-lapse, multi-channel, etc.)
• This course will provide instruction on biological image analysis concepts/theory, and hands-on practical learning.

Learning Objectives

• At the end of this course, the participants will develop a working knowledge of how to apply freely available open-source computational image analysis tools (FARSIGHT, ITK, VTK, Paraview, Overview) to generate quantitative measurements from 3D/4D/5D microscopy image data.

Pre-requisites

• Familiarity with contemporary computers PC/Mac/Linux
• Basic knowledge of programming using scripting languages
  • We will use Python
• Familiarity with common viewing tools and file formats

Content

Methodology