Imaging Tutorials

We periodically offer short tutorials (~ 3 hrs) on imaging, image processing and analysis.

Seminar: 3D confocal imaging and data analysis

Date:  Wednesday April 16, 2008

Location: MIC conference room, BSBW 119

Topics covered include 

• resolution limits for 3D imaging
• Sample preparation strategies, choosing the right mounting medium
• optimizing confocal image acquisition parameters
• data processing: noise removal, correction for z-axis compression/expansion 
• deconvolution of confocal data
• Software for volume and surface rendering
• Segmentation, volume measurements
• Tracking

Those who plan to attend and have particular imaging/analysis needs are encouraged to email/call Stan Vitha (vitha@mic.tamu.edu; tel. 845-1607) ahead of time so that the issues/concerns can be adequately addressed.

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Download the tutorial slide show from the tutorial held September 2006: Imaging-Tutorial-2006.pdf

Topics:

• Ethical issues: acceptable image processing operations
• File formats for digital micrographs
• Image size, aspect ratio, bit depth
• Noise
• Multi-dimensional data
• Resolution and its limits. Optical artifacts
• Using software for analysis and processing: ImageJ, VOXX
• Import and export of images
• Contrast enhancement, sharpening and other digital filters
• Measurements: spatial and density calibration
• Colocalization analysis
• Image stacks – time lapse and z-series
• Volume rendering and 3D projections