== examples/tomotrackbox.py ==

=== An experimental program for interactively exploring tomographic tilt series ===

tomotrackbox.py expects a tomographic tilt-series as input (NOT a reconstruction). Normally this would be the .ali file resulting from a tilt-series
alignment in IMOD, but technically the program can do some of its own alignment, so if your raw tilt-series is not TOO far
out of alignment, you can still use this program. It does not require fiducials as the reconstructed feature itself acts
as a fiducial.

example usage:
$EMAN2DIR/examples/tomotrackbox.py aligned_stack.ali --invert

(use --invert if the target of interest looks black on a lighter background when normally viewed. EMAN2 requires white on a dark background.)

Here is a short demo movie showing how to use some of its features:

[[http://blake.bcm.edu/dl/EMAN2/A.tomotrackbox.mov|tomotrackbox demo movie]]