Welcome to RoiExtractors’s documentation!#
Roiextractors is a library that helps in analyzing, visualizing and interacting with optical physiology data acquired from various acquisition systems.
- ROI
Stands for Region Of Interest, which is the set of pixels from acquired fluorescence images which the segmentation software has determined to follow a particular cellular structure.
With this package, a user can:
Work with imaging data in formats like: ScanImage TIFF, HDF5, Miniscope, Scanbox and more.
Work with post-processed data (after application of cell extraction/segmentation) output from various commonly used cell extraction/segmentation packages like Suite2p, CNMF-E, Caiman, SIMA.
Leverage a common API to streamline analysis and visualization of data from different acquisition systems and cell extraction/segmentation pipelines.
See also
If you want to write data to NWB, you can check out our primary dependent: NeuroConv.