multigait 0.2.0__tar.gz

multigait-0.2.0/LICENSE

@@ -0,0 +1,201 @@
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+   Copyright [2025] [Dr Dimitrios Megaritis]
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multigait-0.2.0/PKG-INFO

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+Metadata-Version: 2.4
+Name: multigait
+Version: 0.2.0
+Summary: MultiGait: Real-World Gait Pipeline for Wrist-Worn Devices
+License-File: LICENSE
+Author: DMegaritis
+Author-email: d.megaritis@northumbria.ac.uk
+Requires-Python: >=3.9,<3.14
+Classifier: Programming Language :: Python :: 3
+Classifier: Programming Language :: Python :: 3.9
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: 3.13
+Requires-Dist: matplotlib (>=3.7.2,<4)
+Requires-Dist: mobgap (>=1.0.0,<2.0.0)
+Requires-Dist: numpy (>=1.25.2)
+Requires-Dist: pandas (>=2.2.0)
+Requires-Dist: typing-extensions (>=4.15.0,<5.0.0)
+Description-Content-Type: text/markdown
+
+# MultiGait: Real-World Gait Pipeline for Wrist-Worn Devices
+
+[![PyPI version](https://img.shields.io/pypi/v/mgait.svg)](https://pypi.org/project/mgait/)
+
+[![DOI](https://zenodo.org/badge/1114654142.svg)](https://doi.org/10.5281/zenodo.17903929)
+
+
+MultiGait (Multimorbidity Gait) is a Python implementation of a gait analysis pipeline for real-world assessment, primarily developed for wrist-worn inertial measurement units (IMUs). This pipeline integrates signal-processing algorithms for gait detection, initial contact detection, stride-length estimation, cadence, and walking speed providing a streamlined workflow for mobility research in people with multiple long-term conditions (multimorbidity). While the pipeline is wrist-focused, fine-tuned versions for lower-back devices are also provided for use in custom workflows.
+
+The individual algorithms included in this library have been developed and validated in multimorbidity cohorts [1]. However, the full integration of these algorithms into a complete pipeline has not yet been formally evaluated, so we do not currently recommend any specific pipeline configuration. In future releases, we plan to systematically assess combinations of algorithms and provide recommended pipelines tailored to different multimorbidity clusters.
+
+Planned future releases include:
+- Fully validated pipelines for different multimorbidity clusters.
+- Novel algorithm implementations.
+- Validated wear-time detection algorithms.
+
+Note on biomechanical definitions
+: The biomechanical logic and gait event definitions implemented in MultiGait are based on the specifications defined within Mobilise-D.
+
+---
+
+Table of Contents
+- [Installation](#installation)
+- [Usage](#usage)
+  - [Pipeline Use](#pipeline-use)
+  - [Specific Algorithms](#specific-algorithms)
+- [Citation](#citation)
+- [Validation reference for the underlying algorithms](#validation-reference-for-the-underlying-algorithms)
+- [Funding and Support](#funding-and-support)
+- [License](#license)
+
+---
+
+## Installation
+
+From PyPI (recommended)
+```bash
+python3 -m pip install multigait
+```
+
+From GitHub:
+
+```bash
+pip install git+https://github.com/DMegaritis/multigait.git
+```
+
+Or clone the repository and install locally:
+
+```bash
+git clone https://github.com/DMegaritis/multigait.git
+cd multigait
+pip install .
+```
+
+---
+
+## Usage
+
+The package is designed to be used in two main modes:
+
+### Pipeline Use
+
+High-level pipelines allow loading raw IMU data and obtaining gait outcomes end-to-end. Example:
+
+```python
+from multigait.pipeline.multigait_pipeline import MultiGaitPipelineSuggested
+
+pipeline = MultiGaitPipelineSuggested()
+pipeline.safe_run(long_trial)
+```
+
+Note: At this stage we offer a suggested pipeline with the best-performing algorithms from [1], but the full pipeline has not been fully validated yet. Please interpret results cautiously.
+
+Additional note: While this library has been primarily developed as a complete gait pipeline for wrist-worn devices, it also includes support for lower-back algorithms. Fine-tuned versions for lower-back devices are provided and can be used in custom pipelines.
+
+### Specific Algorithms
+
+You can also use individual algorithms separately to build custom workflows. Example modules include:
+- Gait Sequence Detection (GSD)
+- Initial Contact Detection (ICD)
+- Stride Length Estimation (SL)
+
+For usage examples and input/output formats, see the examples in this repository or in DMegaritis/multimobility_wrist.
+
+---
+
+## Citation
+
+If you use MultiGait in your research, please cite:
+
+```bibtex
+@software{megaritis2025wristmobility,
+  author    = {Megaritis, Dimitrios and Alcock, Lisa and Scott, Kirsty and Hiden, Hugo and Cereatti, Andrea and Vogiatzis, Ioannis and Del Din, Silvia},
+  title     = {MultiGait: Real-World Gait Pipeline for Wrist-Worn Devices for Multimorbid Populations},
+  year      = {2025},
+  publisher = {Zenodo},
+  doi       = {https://doi.org/10.5281/zenodo.17903930},
+  url       = {https://zenodo.org/records/17903930}
+}
+```
+
+## Validation reference for the underlying algorithms
+[1] Megaritis, D., Alcock, L., Scott, K., Hiden, H., Cereatti, A., Vogiatzis, I., & Del Din, S. (2025). Real-World Wrist-Derived Digital Mobility Outcomes in People with Multiple Long-Term Conditions: A Comparison of Algorithms. Bioengineering, 12(10), 1108. https://doi.org/10.3390/bioengineering12101108
+
+---
+
+## Funding and Support
+
+This work was supported by the Medical Research Council (MRC) Gap Fund award (UKRI/MR/B000091/1).
+
+---
+
+## License
+
+The MultiGait library is licensed under the Apache License 2.0. It is free to use for any purpose, including commercial use, but all distributions must include the license text.
+
+
+<img width="200" height="200" alt="Northumbria_University_Logo" src="https://github.com/user-attachments/assets/4572c9f6-ad7e-4d8b-a398-5bae0547666f" />
+<img width="200" height="200" alt="Medical_Research_Council_logo svg" src="https://github.com/user-attachments/assets/bba73ebd-3e0b-4831-b8c0-e5215c0fe14a" />
+<img width="200" height="200" alt="newcastle-university-logo-png_seeklogo-355206" src="https://github.com/user-attachments/assets/e7a05ab0-6458-4c86-b5d0-723b76f8ac66" />
+

multigait-0.2.0/README.md

@@ -0,0 +1,120 @@
+# MultiGait: Real-World Gait Pipeline for Wrist-Worn Devices
+
+[![PyPI version](https://img.shields.io/pypi/v/mgait.svg)](https://pypi.org/project/mgait/)
+
+[![DOI](https://zenodo.org/badge/1114654142.svg)](https://doi.org/10.5281/zenodo.17903929)
+
+
+MultiGait (Multimorbidity Gait) is a Python implementation of a gait analysis pipeline for real-world assessment, primarily developed for wrist-worn inertial measurement units (IMUs). This pipeline integrates signal-processing algorithms for gait detection, initial contact detection, stride-length estimation, cadence, and walking speed providing a streamlined workflow for mobility research in people with multiple long-term conditions (multimorbidity). While the pipeline is wrist-focused, fine-tuned versions for lower-back devices are also provided for use in custom workflows.
+
+The individual algorithms included in this library have been developed and validated in multimorbidity cohorts [1]. However, the full integration of these algorithms into a complete pipeline has not yet been formally evaluated, so we do not currently recommend any specific pipeline configuration. In future releases, we plan to systematically assess combinations of algorithms and provide recommended pipelines tailored to different multimorbidity clusters.
+
+Planned future releases include:
+- Fully validated pipelines for different multimorbidity clusters.
+- Novel algorithm implementations.
+- Validated wear-time detection algorithms.
+
+Note on biomechanical definitions
+: The biomechanical logic and gait event definitions implemented in MultiGait are based on the specifications defined within Mobilise-D.
+
+---
+
+Table of Contents
+- [Installation](#installation)
+- [Usage](#usage)
+  - [Pipeline Use](#pipeline-use)
+  - [Specific Algorithms](#specific-algorithms)
+- [Citation](#citation)
+- [Validation reference for the underlying algorithms](#validation-reference-for-the-underlying-algorithms)
+- [Funding and Support](#funding-and-support)
+- [License](#license)
+
+---
+
+## Installation
+
+From PyPI (recommended)
+```bash
+python3 -m pip install multigait
+```
+
+From GitHub:
+
+```bash
+pip install git+https://github.com/DMegaritis/multigait.git
+```
+
+Or clone the repository and install locally:
+
+```bash
+git clone https://github.com/DMegaritis/multigait.git
+cd multigait
+pip install .
+```
+
+---
+
+## Usage
+
+The package is designed to be used in two main modes:
+
+### Pipeline Use
+
+High-level pipelines allow loading raw IMU data and obtaining gait outcomes end-to-end. Example:
+
+```python
+from multigait.pipeline.multigait_pipeline import MultiGaitPipelineSuggested
+
+pipeline = MultiGaitPipelineSuggested()
+pipeline.safe_run(long_trial)
+```
+
+Note: At this stage we offer a suggested pipeline with the best-performing algorithms from [1], but the full pipeline has not been fully validated yet. Please interpret results cautiously.
+
+Additional note: While this library has been primarily developed as a complete gait pipeline for wrist-worn devices, it also includes support for lower-back algorithms. Fine-tuned versions for lower-back devices are provided and can be used in custom pipelines.
+
+### Specific Algorithms
+
+You can also use individual algorithms separately to build custom workflows. Example modules include:
+- Gait Sequence Detection (GSD)
+- Initial Contact Detection (ICD)
+- Stride Length Estimation (SL)
+
+For usage examples and input/output formats, see the examples in this repository or in DMegaritis/multimobility_wrist.
+
+---
+
+## Citation
+
+If you use MultiGait in your research, please cite:
+
+```bibtex
+@software{megaritis2025wristmobility,
+  author    = {Megaritis, Dimitrios and Alcock, Lisa and Scott, Kirsty and Hiden, Hugo and Cereatti, Andrea and Vogiatzis, Ioannis and Del Din, Silvia},
+  title     = {MultiGait: Real-World Gait Pipeline for Wrist-Worn Devices for Multimorbid Populations},
+  year      = {2025},
+  publisher = {Zenodo},
+  doi       = {https://doi.org/10.5281/zenodo.17903930},
+  url       = {https://zenodo.org/records/17903930}
+}
+```
+
+## Validation reference for the underlying algorithms
+[1] Megaritis, D., Alcock, L., Scott, K., Hiden, H., Cereatti, A., Vogiatzis, I., & Del Din, S. (2025). Real-World Wrist-Derived Digital Mobility Outcomes in People with Multiple Long-Term Conditions: A Comparison of Algorithms. Bioengineering, 12(10), 1108. https://doi.org/10.3390/bioengineering12101108
+
+---
+
+## Funding and Support
+
+This work was supported by the Medical Research Council (MRC) Gap Fund award (UKRI/MR/B000091/1).
+
+---
+
+## License
+
+The MultiGait library is licensed under the Apache License 2.0. It is free to use for any purpose, including commercial use, but all distributions must include the license text.
+
+
+<img width="200" height="200" alt="Northumbria_University_Logo" src="https://github.com/user-attachments/assets/4572c9f6-ad7e-4d8b-a398-5bae0547666f" />
+<img width="200" height="200" alt="Medical_Research_Council_logo svg" src="https://github.com/user-attachments/assets/bba73ebd-3e0b-4831-b8c0-e5215c0fe14a" />
+<img width="200" height="200" alt="newcastle-university-logo-png_seeklogo-355206" src="https://github.com/user-attachments/assets/e7a05ab0-6458-4c86-b5d0-723b76f8ac66" />

multigait-0.2.0/multigait/CAD/base_cad.py

@@ -0,0 +1,42 @@
+from typing import Any
+import copy
+
+import pandas as pd
+from tpcp import Algorithm
+from typing_extensions import Self, Unpack
+
+
+class BaseCadDetector(Algorithm):
+    """Minimal standalone BaseCadDetector.
+
+    This base class mirrors the style of other small base classes in the codebase:
+      - Declares the action method name so tpcp-based code can call it generically.
+      - Documents expected attributes for implementers.
+      - Provides a clone() helper that returns a deep copy of the instance.
+    """
+
+    _action_methods = ("calculate",)
+
+    # expected attributes for type checkers / docs
+    data: pd.DataFrame
+    sampling_rate_hz: float
+    initial_contacts: pd.DataFrame
+    cadence_per_sec_: pd.DataFrame
+
+    def calculate(
+        self,
+        data: pd.DataFrame,
+        *,
+        initial_contacts: pd.DataFrame,
+        sampling_rate_hz: float,
+        **kwargs: Unpack[dict[str, Any]],
+    ) -> Self:
+        """Implement in subclass."""
+        raise NotImplementedError
+
+    def clone(self) -> "BaseCadDetector":
+        """Return a deep copy of this detector so callers can do clone().calculate(...)."""
+        return copy.deepcopy(self)
+
+
+__all__ = ["BaseCadDetector"]