📈 Introducing Analysis Module with Synaptic Functions & IO Enhancements

[mansouralawi]

In this PR, we're taking a significant step forward by introducing a dedicated Analysis module tailored for synaptic functions, expanding our toolkit for synapse properties analysis, and making necessary improvements in the IO functionalities.

New Additions & Enhancements

1. Analysis Module:

   • A new module has been added to the package, named "Analysis," designed to house synaptic analysis functions, reflecting our commitment to offer specialized tools for synaptic research.

2. Synapse Properties Analysis:

   • extract_synapse_coordinates: This function extracts bounding cube coordinates from the segmentation masks, assigning a unique label to each synapse. It serves as the foundation for subsequent synaptic analyses.
   • measure_synapse_properties: Leveraging the bounding cube coordinates, this function delves deep to analyze and calculate synaptic properties for each individual synapse.

3. Utility Function for Synapse Metrics:

   • calculate_volume_and_surface_area: A utility function has been added to compute the surface area and volume of synapses, catering to both standard Euclidean and physical dimensions.

4. IO Function Enhancements:

   • New IO functions to support JSON operations have been introduced, assisting in reading and saving JSON files seamlessly.
   • Refactoring: The function createfolderstruc has been aptly renamed to create_folder_structure, making it more readable and aligned with naming conventions.