Motion Correction

Following video downsampling, it is necessary to correct motion artifacts in each individual session.

For this we use the following function.

CaliAli_options=CaliAli_motion_correction(CaliAli_options);

Output File

Running this function produces a .mat file with the _mc tag, containing both the motion corrected video data and the CaliAli_options structure. By default, the output file name matches the input video, and the save path defaults to the location of the input video. A typical file name may be vid_01_ds_mc.mat.

Limitations of the non-rigid registration module

This code is experimental and may introduce undesired deformations when adjusting for non-rigid deformation.

How long it takes to motion correct videos?

• Rigid: ~ 5,000 frames in ~2 minutes on a modern CPU.
• Non-rigid: is substantially slower processing around ~10 frames per second. A new non-rigid model will be implemented soon

Important

Ensure to visually inspect the motion-corrected video before proceeding to the next step: view_Ca_video()

Next

After finishing downsampling and motion correction you can proceed to Inter-session Alignment