Code Repository
Over the last few years, we have written a variety of custom analysis code for our users. The distinct scripts have been organized below. Please follow the links to a more complete description and installation instructions.
THIS PAGE IS A CONTINOUS WORK IN PROGRESS.
Contact the BIDC ([email protected]) for additional description or help.

BIDC GitHub

 

 Object Analysis     

Global Surface Curvature for Large Objects-ImarisXT in Matlab   

Export Surface Vertices to Text-ImarisXT in Matlab   

Object Tracking    

Quantify Dwell Times-ImarisXT   

Plot Tracks From A Common Origin-ImarisXT

Surface2SurfaceDists_NNeighbors    

Segmentation    

Spots Overcount-ImarisXT in Matlab  

Sortomato-ImarisXT in Matlab   

Telomere Counter-Metamorph    

Dilate Surfaces-ImarisXT in Matlab

Learning    

How to create a Matlab .exe    

How to write an Imaris XT    

Imaris Tutorials    

 Spatial Distribution    

Angular Radial Position Distribution-ImarisXT in Matlab   

Create Spots from CSV-ImarisXT in Matlab   

Post-Processing    

Fiji Batch Macro Skeleton-FIJI Macro   

Imaricµmpiler-FIJI Plugin  

XYT Bleach Correction-FIJI Plugin

Instrument Control      

µMagellan-uManager Plugin   

 

 

Quality of Life       

Create Sequential Folders-Python   

Delete Decon-Python