Glossary#
- skewness #
How often do you get an outlier in the pixel activity across time, good for calcium indicators because theyre flat relative to a few events over the course of a recording.
- mean_img#
The average of the registered movie over time. Used as a baseline representation of the structural signal.
- max_proj#
The maximum value per pixel over time. Highlights regions with high fluorescence, useful for detecting active areas.
- meanImgE#
Enhanced mean image generated by Suite2p using filtering and sharpening operations. Useful for anatomical segmentation when available.
- anatomical segmentation#
ROI detection based solely on static images (e.g. mean or max projection), ignoring fluorescence time dynamics.
- functional segmentation#
ROI detection based on pixelwise correlations across time, identifying spatially contiguous regions with similar activity patterns.
- seed#
A pixel or region in the image used as the starting point for growing a potential ROI. Seeding is based on high-intensity regions in the filtered image, and forms the initial guess for the shape and location of a neuron.
- Delta F over F0#
\(\Delta F / F_0\) (Delta F over F naught) refers to the fractional change in fluorescence relative to a baseline signal F₀. This is a common normalization used in calcium imaging and neural activity recordings.
- segmentation#
The general process of dividing an image based on the contents of that image, in our case, based on neuron location.
- source-extraction#
Umbrella term for all of the individual processes that produce a segmented image.
- deconvolution#
The process performed after segmentation to the resulting traces to infer spike times from flourescence values.
- Rigid-registration#
The object retains shape and size.
- Non-rigid-registration#
The object is moved and transforms shape or size.
- pixel-resolution#
The length of each pixel, in micron (px/um).