Download

To download and install idTracker 2.1:

Download and install Matlab Compiler Runtime 8.3 (64 bits)
Download the executables of idTracker. Copy them to any location of your hard-drive, and execute idTracker.exe to start using it.

User Guide (a bit outdated, but useful)

Example video of 5 zebrafish

You can also download the code (not needed to use idTracker on Windows)

You can also download idMatcher, a tool to relate the identities of individuals across different videos. To download and install idMatcher:

Download and install Matlab Compiler Runtime 8.2 (64 bits) this is a different version than the one needed for idTracker)
Download the executable of idMatcher. Uncompress it in any location of your hard-drive, and execute idMatcher.exe to start using it.
Here you can find the instructions for idMatcher, and its Matlab source code.