Postprocessing app

Syntac

function ix=postprocessing_app(neuron,thr)

Description

Interactive labeling and classification of CNMF-E components.

Function Inputs:

Parameter Name	Type	Description
neuron	struct	CNMF-E neuron structure containing extracted components.
thr	double	Threshold for drawing neuron contours.

Function Outputs:

Parameter Name	Type	Description
ix	logical	Logical index of selected components, where selected components are those labeled in all three projection views.

Example usage:

ix = postprocessing_app(neuron, 0.8);

The post-processing app will display the correlation image with overlaid contours of the detected neurons. Clicking on these contours will show the corresponding extracted calcium transients:

select_component_app

You can hold you mouse to zoom:

zoom_app

You can reset the zoom and clear the neuronal selection by pressing the buttons located above the correlation image:

reset_app

You can label false positives by right-clicking on the neuron contours:

label_fp_app

Sort Spatial Components

CaliAli can label false positives based on the shape of the extracted spatial components. To accomplish this, CaliAli incorporates a tool that sorts spatial components by their spatial congruence. To utilize this function, press the 'Separate Spatial' button.

This will open a panel displaying all the extracted spatial components. Components with congruent shapes are sorted at the beginning, while neurons with shapes different from the rest of the population are sorted last. Components labeled as false-positives will be listed on the right.

sort_component_app

Note that elongated components, which could correspond to neuropil signals rather than neuron somas, appear at the bottom of the list. You can select these components and move them to the false-positive panel.

sort_component_discard_app

Once satisfied with the selections press the Done! button.

This will label the component as false-positive in the correlation image.