CIAtah (pronounced cheetah): a software package for calcium imaging analysis of one- and two-photon imaging datasets. Documentation: https://git.io/ciatah_docs. Formerly known as calciumImagingAnalysis (ciapkg).
playMovie - Add support for read from disk for major filetypes, e.g. hdf5, tiff, avi, and isxd. User just needs to input filename. Added frameList to support only looping over specific sequences in the movie.
example_downloadTestData - added two-photon example data.
ciapkgRoot - added for future functions to quickly locate the root as needed.
ciapkg.getDir - allow users to get the directory of ciapkg quickly.
ciapkg.io.loadIDPS - added to allow central place to load Inscopix IDP ISX package.
ciapkg.demo.cmdLinePipeline - Use ciapkg.getDir() to make sure demo always calls correct path regardless of where user is pointing. Also make playMovie calls have titles to make clearer to new users and allow a GUI-less option.
loadMovieList - Change warning message output for HDF5 file of certain type. Add option to suppress warnings.
turboregMovie - Remove references to parfor_progress.
computeCnmfSignalExtractionClass - allow option to skip CNN, problematic for certain datasets and not necessary if doing manual classification.
playMovie
- Add support for read from disk for major filetypes, e.g. hdf5, tiff, avi, and isxd. User just needs to input filename. Added frameList to support only looping over specific sequences in the movie.example_downloadTestData
- added two-photon example data.ciapkgRoot
- added for future functions to quickly locate the root as needed.ciapkg.getDir
- allow users to get the directory of ciapkg quickly.ciapkg.io.loadIDPS
- added to allow central place to load Inscopix IDP ISX package.ciapkg.demo.cmdLinePipeline
- Use ciapkg.getDir() to make sure demo always calls correct path regardless of where user is pointing. Also make playMovie calls have titles to make clearer to new users and allow a GUI-less option.loadMovieList
- Change warning message output for HDF5 file of certain type. Add option to suppress warnings.turboregMovie
- Remove references to parfor_progress.computeCnmfSignalExtractionClass
- allow option to skip CNN, problematic for certain datasets and not necessary if doing manual classification.