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User Guide

Installation
Quick Start
Image Processing Parameters
Example data
Running Tests
Troubleshooting

Examples

1. Reconstructing photoacoustic data
2. Comparing image reconstruction methods
3: Command Line Usage
4: Time-Series MSOT Data Analysis
5: Writing your own reconstruction algorithm
6: Writing your own scan reader

Developers

File Format Specification
Contributing to PATATO

API Reference

Analysis Code
- patato
Convenience Scripts
- convenience_scripts
  - convert_binary_to_hdf5
    - main
  - convert_simpa
    - main
  - copy_rois
    - init_argparse
    - main
  - data_analysis
    - analyse_dce
    - analyse_gas_challenge
  - generate_core
    - init_argparse
    - main
  - import_clinical_data
    - init_argparse
    - main
  - import_ithera_recons
    - init_argparse
    - main
  - print_speeds
    - init_argparse
    - main
  - process_msot
    - main
  - rename_scan
    - init_argparse
    - main
  - scan_status
    - init_argparse
    - main
  - split_rois
    - init_argparse
    - main
  - unmix
    - init_argparse
    - main
  - view
    - init_argparse
    - main
Useful Utilities
- useful_utilities

.rst

process_study

process_study#

Functions

get_hdf5_files(folder[, filter_name, mode])

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animate_sequence

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get_hdf5_files

By Thomas Else

© Copyright 2023, Thomas Else.