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cft-analysis-1.2.0
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مشاهده بیشتر
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مشاهده بیشترتوضیحات
Package for the analysis of Cold Face Test Data.
| ویژگی | مقدار |
|---|---|
| سیستم عامل | - |
| نام فایل | cft-analysis-1.2.0 |
| نام | cft-analysis |
| نسخه کتابخانه | 1.2.0 |
| نگهدارنده | [] |
| ایمیل نگهدارنده | [] |
| نویسنده | Robert Richer |
| ایمیل نویسنده | robert.richer@fau.de |
| آدرس صفحه اصلی | https://github.com/mad-lab-fau/cft-analysis |
| آدرس اینترنتی | https://pypi.org/project/cft-analysis/ |
| مجوز | MIT |
# cft-analysis
[](https://pypi.org/project/cft-analysis/)
[](https://github.com/mad-lab-fau/cft-analysis/actions/workflows/lint.yml)
[](https://github.com/psf/black)
Python package for the analysis of data collected during the Cold Face Test (CFT) study.
## Description
This package contains various helper functions to work with the dataset (including [`tpcp`](https://github.com/mad-lab-fau/tpcp) `Dataset` representations) and to process data. Additionally, it contains different analysis experiments performed with the dataset.
## Repository Structure
The repository is structured as follows:
```bash
├── cft_analysis/ # cft-analysis Python package
└── experiments/ # Folder with conducted analysis experiments; each experiment has its own subfolder
└── 2022_scientific_reports/ # Analysis for the 2022 Scientific Reports Paper (see below)
├── data/ # Processed data and extracted parameters
├── notebooks/ # Notebooks for data processing, analysis and plotting
│ ├── data_processing/
│ │ ├── ECG_Processing_Feature_Computation.ipynb # Processing and feature extraction from ECG data
│ │ ├── Questionnaire_Processing.ipynb # Processing of questionnaire data
│ │ └── Saliva_Processing.ipynb # Processing of saliva data
│ ├── analysis/
│ │ ├── Subject_Exclusion.ipynb # Checks whether (and which) subjects need to be excluded from further analysis
│ │ ├── Demographics.ipynb # Analysis of general information of study population: Age, Gender, BMI, ...
│ │ ├── ECG_Analysis.ipynb # Descriptive and statistical analysis of ECG data
│ │ ├── Questionnaire_Analysis.ipynb # Descriptive and statistical analysis of questionnaire data
│ │ └── Saliva_Analysis.ipynb # Descriptive and statistical analysis of saliva data
│ └── plotting/
├── results/ # Plots and statistical results exported by the notebooks in the "analysis" and "plotting" folders
└── config.json #
```
## Installation
If you want to use this package to reproduce the analysis results then clone the repository and install the
package via [poetry](https://python-poetry.org):
```bash
git clone git@github.com:mad-lab-fau/cft-analysis.git
cd cft-analysis
poetry install # alternative: pip install .
```
This creates a new python venv in the `cft-analysis/.venv` folder. Next, register a new IPython kernel for the venv:
```bash
cd cft-analysis
poetry run poe register_ipykernel
```
Finally, go to the `experiments` folder and run the Jupyter Notebooks.
## Experiments
Currently, this repository contains the following experiments:
### 2022 – Scientific Reports
Analysis of the [CFT Dataset](https://osf.io/8fb6n/) for the paper [Vagus Activation by Cold Face Test Reduces Acute Psychosocial Stress Responses](https://www.nature.com/articles/s41598-022-23222-9), published in *Scientific Reports*.
#### Usage
In order to run the code, first download the CFT Dataset, e.g. from [OSF](https://osf.io/8fb6n/). Then, create a file named `config.json` in the folder `/experiments/2022_scientific_reports` with the following content:
```json
{
"base_path": "<path-to-dataset>"
}
```
This config file is parsed by all notebooks to extract the path to the dataset.
**NOTE**: This file is ignored by git because the path to the dataset depends on the local configuration!
The files in the `data` folder are created by running the notebooks in the `data_processing` folder. The files in the `result` folder are created by running the notebooks in the `analysis` and the `plotting` folders.
نیازمندی
| مقدار | نام |
|---|---|
| >=0.6,<0.7 | biopsykit[jupyter] |
| >=0.9.0,<0.10.0 | tpcp |
زبان مورد نیاز
| مقدار | نام |
|---|---|
| >=3.8,<3.11 | Python |
نحوه نصب
نصب پکیج whl cft-analysis-1.2.0:
pip install cft-analysis-1.2.0.whl
نصب پکیج tar.gz cft-analysis-1.2.0:
pip install cft-analysis-1.2.0.tar.gz