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This u-probe software package allows processing of raw ratiometric biosensor images (for example based on FRET) into fully corrected "ratio maps" or "activation maps" — images showing the localized activation of the biosensor. This includes application of all necessary image corrections needed for quantitative widefield imaging of ratiometric biosensors.
For instructions on downloading MATLAB, cloning the u-probe Git Repository, and adding the u-probe Repository to your MATLAB Path, please visit the Installation page.
For instructions to initialize the software in MATLAB and generate the necessary data structure for analysis, please visit the Getting Started page.
For comprehensive descriptions of the u-probe package and explanations of parameters for each of its individual steps, please refer to the sidebar located on the right side of the Wiki page.
Lyda Hill Department of Bioinformatics and Cecil H. and Ida Green Center for Systems Biology
University of Texas Southwestern Medical Center
Dallas, TX. 75390
Feedback: danusersoftware@utsouthwestern.edu
- u-probe Package Description
- Dark Current Correction Process Description
- Shade Correction Process Description
- Cropping Shade Corrected Movie Process Description
- Segmentation Process Description
- Background Mask Process Description
- Mask Refinement Process Description
- Background Subtraction Process Description
- Transformation Process Description
- Bleedthrough Correction Process Description
- Ratioing Process Description
- Photobleach Correction Process Description
- Ratio Output Process Description