1. Introduction
2. Project Overview
3. System Architecture
4. Implementation Steps
5. Code Modules
• Data Ingestion Module
• Data Preprocessing Module
• Feature Extraction Module
• Correlation Analysis Module
• Visualization Module
6. Dependencies and Installation
7. Running the Application
8. Conclusion
9. Appendices
• Appendix A: Full Source Code
• Appendix B: Dataset Format Examples
This comprehensive guide details the development of a production-ready Python application designed to intake, analyze, and identify connections and correlations between various psychometric, vitals, and neurological imaging data. The application handles data types including:
• Eye tracking data
• Face heat map tracking
• Heart rate & blood pressure readings
• EEG data
• Self-response questionnaire surveys
The goal is to uncover previously unidentified correlations and insights from the collected datasets.
The application performs the following key functions:
1. Data Ingestion: Reads and validates data from various sources.
2. Data Preprocessing: Cleans and formats data for analysis.
3. Feature Extraction: Extracts meaningful features from raw data.
4. Correlation Analysis: Identifies relationships between different data types.
5. Visualization: Generates graphs and heatmaps to illustrate findings.
The system consists of modular components to ensure scalability and maintainability:
• Input Layer: Handles data ingestion from multiple sources.
• Processing Layer: Performs preprocessing and feature extraction.
• Analysis Layer: Conducts statistical and machine learning analyses.
• Output Layer: Generates visualizations and reports.
Install Python 3.8 or higher. Create a virtual environment:
python3 -m venv venv
source venv/bin/activate # On Windows use `venv\Scripts\activate`
pip install numpy pandas scipy scikit-learn matplotlib seaborn mne
Create the following directory structure:
project_root/
│
├── data/
│ ├── eye_tracking/
│ ├── face_heatmap/
│ ├── vitals/
│ ├── eeg/
│ └── surveys/
│
├── src/
│ ├── data_ingestion.py
│ ├── data_preprocessing.py
│ ├── feature_extraction.py
│ ├── correlation_analysis.py
│ └── visualization.py
│
├── main.py
└── requirements.txt
• Purpose: Load data from various formats (CSV, JSON, EDF for EEG).
• Implement functions to read each data type.
• Clean data (handle missing values, normalize).
• Synchronize data based on timestamps.
• Extract features like fixation durations from eye tracking.
• Compute statistical measures from EEG (e.g., band power).
• Derive scores from survey responses.
• Use statistical methods (Pearson, Spearman correlations).
• Implement machine learning models if necessary.
• Create plots to visualize data distributions.
• Generate heatmaps for correlation matrices.
• Coordinate the workflow:
• Ingest data.
• Preprocess data.
• Extract features.
• Perform analysis.
• Visualize results.
• Run the application with sample data.
• Use logging to track the application’s execution.
• Debug any issues that arise.
• Write docstrings for all functions and classes.
• Create a README file with instructions.
Below are the detailed implementations of each module.
File: src/data_ingestion.py
import pandas as pd
import mne # For EEG data
def load_eye_tracking_data(path):
df = pd.read_csv(path)
return df
def load_face_heatmap_data(path):
df = pd.read_csv(path)
return df
def load_vitals_data(path):
df = pd.read_csv(path)
return df
def load_eeg_data(path):
raw = mne.io.read_raw_edf(path, preload=True)
return raw
def load_survey_data(path):
df = pd.read_csv(path)
return df
File: src/data_preprocessing.py
import pandas as pd
def preprocess_eye_tracking(df):
df.fillna(method='ffill', inplace=True)
# Additional preprocessing steps
return df
def preprocess_eeg(raw):
raw.filter(1., 50.) # Bandpass filter
# Additional preprocessing steps
return raw
def synchronize_data(dfs, on='timestamp'):
from functools import reduce
df_merged = reduce(lambda left, right: pd.merge(left, right, on=on), dfs)
return df_merged
File: src/feature_extraction.py
import numpy as np
def extract_eye_tracking_features(df):
features = {}
features['avg_fixation_duration'] = df['fixation_duration'].mean()
# Additional features
return features
def extract_eeg_features(raw):
epochs = mne.make_fixed_length_epochs(raw, duration=2.0)
psd, freqs = mne.time_frequency.psd_welch(epochs)
features = psd.mean(axis=0)
return features
File: src/correlation_analysis.py
import pandas as pd
def compute_correlations(features_df):
corr_matrix = features_df.corr(method='pearson')
return corr_matrix
def identify_significant_correlations(corr_matrix, threshold=0.5):
significant = corr_matrix[(corr_matrix > threshold) & (corr_matrix != 1.0)]
return significant
File: src/visualization.py
import seaborn as sns
import matplotlib.pyplot as plt
def plot_correlation_heatmap(corr_matrix):
sns.heatmap(corr_matrix, annot=True, fmt=".2f")
plt.show()
def plot_feature_distributions(features_df):
features_df.hist(bins=15, figsize=(15, 10))
plt.show()
numpy
pandas
scipy
scikit-learn
matplotlib
seaborn
mne
Install dependencies using:
pip install -r requirements.txt
1. Prepare the Data
• Place your datasets in the respective folders within the data/ directory.
• Ensure all data files are properly formatted (see Appendix B).
2. Configure main.py
File: main.py
from src.data_ingestion import *
from src.data_preprocessing import *
from src.feature_extraction import *
from src.correlation_analysis import *
from src.visualization import *
def main():
# Data Ingestion
eye_data = load_eye_tracking_data('data/eye_tracking/eye_data.csv')
eeg_data = load_eeg_data('data/eeg/eeg_data.edf')
survey_data = load_survey_data('data/surveys/survey_data.csv')
eye_data = preprocess_eye_tracking(eye_data)
eeg_data = preprocess_eeg(eeg_data)
eye_features = extract_eye_tracking_features(eye_data)
eeg_features = extract_eeg_features(eeg_data)
survey_features = survey_data.mean().to_dict()
features_df = pd.DataFrame([eye_features, eeg_features, survey_features])
corr_matrix = compute_correlations(features_df)
significant_corrs = identify_significant_correlations(corr_matrix)
plot_correlation_heatmap(corr_matrix)
plot_feature_distributions(features_df)
if __name__ == '__main__':
main()
-
Execute the Application
python main.py
This application provides a robust framework for analyzing complex psychometric and neurological datasets. By following the outlined steps and utilizing the provided code, you can uncover valuable insights and correlations within your data.
Appendix A: Full Source Code
The full source code is available in the src/ directory and can be accessed as per the structure defined earlier.
Appendix B: Dataset Format Examples
Eye Tracking Data (eye_data.csv)
timestamp fixation_duration saccade_amplitude pupil_size
1609459200 0.2 1.5 3.1
1609459201 0.15 1.2 3.0
EEG Data (eeg_data.edf)
• Standard EDF file with properly labeled channels.
• Sampling rate: 256 Hz.
Survey Data (survey_data.csv)
question_id response_score
1 4
2 3