MicrobeTracker Tools

This page contains a brief description of the available tools that supplement MicrobeTracker. Click the name of a particular tool to get more information. For the description of the data format, in particular the cellList structure, refer to Output Format section of MicrobeTracker manual.

All these commands run under MATLAB, some will be also compiled into stand-alone versions. When running from MATLAB it is generally suggested to add the folder with MicrobeTracker package to MATLAB path (File>Set Path>Add with Subfolders, then select the folder) and select the folder (or a close upper-level folder) with your data as the working folder in MATLAB, this will allow to select the data fast.

Many of the tools that display results require an array containing cell meshes produced by MicrobeTracker or by SpotFinder family tools. This array could be loaded by dragging and dropping the results file into the MATLAB workspace. Alternatively, MATLAB's load command or MATLAB's variable editor menu can be used to load the array. The name of the array in the file is cellList.

To get help about the functions follow the links on this page or type 'help <function_name>' in MATLAB workspace (providing the name of the appropriate function, e.g. 'help renfiles').

List of tools:

Preparation of images and files

Tracking cells

Cell dimensions statistics

Cell intensity statistics

Spot detection

Spot statistics

Displaying cells and spots

Cell curvature

Exporting and importing data

 

See also MicrobeTracker section. Top page: MicrobeTracker Suite.