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  1. SWR-Analysis SWR-Analysis Public

    Suite of MATLAB algorithms (recommended to be used with App Designer GUI) for the analysis and coincidence detection of local field sharp wave ripples (SWRs), local field oscillations (theta, gamma…

    MATLAB 5

  2. deltaFoF deltaFoF Public

    Set of ImageJ (FIJI) macros to import raw TIF images of time series Calcium imaging recordings, correct for photo-bleaching, identify regions of highest fluorescence change to assist in ROI placeme…

    ImageJ Macro 3

  3. colocalizationIHC colocalizationIHC Public

    An FIJI (ImageJ) macro to automate multi-channel colocalization analyses, to calculate regional intensities, pairwise Pearson's correlations, and subdivide cell counts within regions.

    ImageJ Macro

  4. ABC-Atlas_Chittajallu2025 ABC-Atlas_Chittajallu2025 Public

    Jupyter notebooks to access Allen Institute ABC Atlas. Adapted from example notebooks provided at: https://alleninstitute.github.io/abc_atlas_access/intro.html. For manuscript Chittajallu et al. 2025

    Jupyter Notebook

  5. ABC_Atlas_Kim2025 ABC_Atlas_Kim2025 Public

    Jupyter notebooks to access Allen Institute ABC Atlas. Adapted from example notebooks provided at: https://alleninstitute.github.io/abc_atlas_access/intro.html. For manuscript Kim et al. 2025

    Jupyter Notebook