GUI

Starting the GUI

The quickest way to start is to open the GUI from a command line terminal:

python -m facemap

Command line usage

Run python -m facemap --help to see usage of the following optional parameters:

-h, --help

show this help message and exit

--ops

options

--movie

Absolute path to video(s)

--keypoints

Absolute path to keypoints file (*.h5)

--proc_npy

Absolute path to proc file (*_proc.npy)

--neural_activity

Absolute path to neural activity file (*.npy)

--neural_prediction

Absolute path to neural prediction file (*.npy)

--tneural

Absolute path to neural timestamps file (*.npy)

--tbehavior

Absolute path to behavior timestamps file (*.npy)

--savedir

save directory

--autoload_keypoints

Automatically load keypoints in the same directory as the movie

--autoload_proc

Automatically load *_proc.npy in the same directory as the movie

Using the GUI

The GUI can be used for the processing keypoints and SVD of mouse behavioral videos. The GUI can also be used for predicting neural activity using the behavioral data. For more details on each feature, see the following tutorials:

• Pose tracking (GUI)
  • Generate keypoints
  • Visualize keypoints
  • Finetune model to refine keypoints for a video
• SVD processing and ROIs
  • ROI types
    • Motion SVD
    • Pupil computation
    • Blink computation
    • Running computation
• Neural activity prediction