Graphomotor Study Toolkit

A Python toolkit for analysis of graphomotor data collected via Curious.

Welcome to graphomotor, a specialized Python library for analyzing graphomotor data collected via Curious. This toolkit aims to provide comprehensive tools for processing, analyzing, and visualizing data from various graphomotor assessment tasks, including spiral drawing, trails making, alphabetic writing, digit symbol substitution, and the Rey-Osterrieth Complex Figure Test.

Feature Extraction Capabilities

The toolkit extracts clinically relevant metrics from digitized drawing data. Currently implemented features include:

• Temporal Features: Task completion duration.
• Velocity Features: Velocity analysis including linear, radial, and angular velocity components with statistical measures (sum, median, variation, skewness, kurtosis).
• Distance Features: Spatial accuracy measurements using Hausdorff distance metrics with temporal normalizations and segment-specific analysis.
• Drawing Error Features: Area under the curve (AUC) calculations between drawn paths and ideal reference trajectories to quantify spatial accuracy.

Installation

Install the graphomotor package from PyPI:

pip install graphomotor

Or install the latest development version directly from GitHub:

pip install git+https://github.com/childmindresearch/graphomotor

Quick Start

Extracting Features from Spiral Drawing Data

Single File Processing

from graphomotor.core import orchestrator

# Path to your spiral drawing data file
input_file = "path/to/your/spiral_data.csv"

# Option 1: Process file without saving any CSV file
# Only return the DataFrame with extracted features
features_df = orchestrator.run_pipeline(
    input_path=input_file
)

# Features are returned as a pandas DataFrame with source file as index
print(f"Extracted features: {list(features_df.columns)}")

# Access the single file's data (features_df has one row)
file_path = features_df.index[0]
print(f"File: {file_path}")
print(f"Participant: {features_df.loc[file_path, 'participant_id']}")
print(f"Task: {features_df.loc[file_path, 'task']}")
print(f"Hand: {features_df.loc[file_path, 'hand']}")
print(f"Duration: {features_df.loc[file_path, 'duration']}")

# Option 2: Save to a directory with auto-generated filename
# Creates a CSV file with auto-generated name in the specified directory
# Format: {participant_id}_{task}_{hand}_features_{YYYYMMDD_HHMM}.csv
features_df = orchestrator.run_pipeline(
    input_path=input_file,
    output_path="path/to/output/directory"
)

# Option 3: Save to a specific CSV file
# Features will be saved to the specified file path
features_df = orchestrator.run_pipeline(
    input_path=input_file,
    output_path="path/to/features.csv"
)

Batch Processing

from graphomotor.core import orchestrator

# Path to directory containing multiple spiral drawing data files
input_dir = "path/to/your/spiral_data_directory"

# Option 1: Process files without saving any CSV files
# Only return the DataFrame with extracted features
features_df = orchestrator.run_pipeline(
    input_path=input_dir,
)

# Features are returned as a pandas DataFrame with source files as index
# Columns include: participant_id, task, hand, start_time, and calculated features
print(f"Successfully processed {len(features_df)} files")

# Access metadata and features for a specific file
for file_path in features_df.index:
    print(f"File: {file_path}")
    print(f"Participant: {features_df.loc[file_path, 'participant_id']}")
    print(f"Task: {features_df.loc[file_path, 'task']}")
    print(f"Hand: {features_df.loc[file_path, 'hand']}")
    print(f"Duration: {features_df.loc[file_path, 'duration']}")

# Option 2: Save to a directory with auto-generated filename
# Creates a single consolidated CSV file with auto-generated name
# Format: batch_features_{YYYYMMDD_HHMM}.csv
features_df = orchestrator.run_pipeline(
    input_path=input_dir,
    output_path="path/to/output/directory"
)

# Option 3: Save to a specific CSV file (single consolidated file)
# All features will be written to one specified file
features_df = orchestrator.run_pipeline(
    input_path=input_dir,
    output_path="path/to/consolidated_features.csv"
)

For detailed configuration options and additional parameters, refer to the run_pipeline documentation.

Development Progress

Task	Preprocessing	Feature Extraction	Visualization
Spiral
Rey-Osterrieth Complex Figure
Alphabetic Writing
Digit Symbol Substitution
Trails Making

Data Format Requirements

When exporting drawing data from Curious, you typically receive the following files:

• report.csv: Contains the participants' actual responses.
• activity_user_journey.csv: Logs the entire journey through the activity, including button actions like "Next", "Skip", "Back", and "Undo", regardless of whether a response was provided.
• drawing-responses-{date}.zip: A ZIP archive with raw drawing response CSV files for each participant (e.g., drawing-responses-Mon May 29 2023.zip).
• media-responses-{date}.zip: A ZIP archive containing SVG files for the drawing responses (e.g., media-responses-Mon May 29 2023.zip).
• trails-responses-{date}.zip: A ZIP archive with raw trail making response CSV files (if there are any) for each participant (e.g., trails-responses-Mon May 29 2023.zip).

For Spiral tasks, the toolkit uses only the CSV files from the drawing responses ZIP. Support for additional tasks will be added in future releases.

File Naming Convention

Your spiral data files must follow this naming convention:

[5123456]a7f3b2e9-d4c8-f1a6-e5b9-c2d7f8a3e6b4-spiral_trace1_Dom.csv

Where:

• Participant ID: Must be enclosed in brackets [] and be a 7-digit number starting with 5 (e.g., [5123456]) that matches the target_secret_id column in the report.csv file.
• Activity Submission ID: Must be a 32-character hexadecimal string (e.g., 18f2-45ea-a1e4-2334e07cc706) that matches the id column in the report.csv file.
• Task: Must be one of the following that matches the item column in the report.csv file:
  • spiral_trace1_Dom through spiral_trace5_Dom (dominant hand tracing tasks)
  • spiral_trace1_NonDom through spiral_trace5_NonDom (non-dominant hand tracing tasks)
  • spiral_recall1_Dom through spiral_recall3_Dom (dominant hand recall tasks)
  • spiral_recall1_NonDom through spiral_recall3_NonDom (non-dominant hand recall tasks)

Data Format

Your spiral data CSV file must contain the following columns:

line_number, x, y, UTC_Timestamp, seconds, epoch_time_in_seconds_start

This format represents the standard output from Curious drawing responses data dictionary.

Future Directions

The Graphomotor Study Toolkit is under active development. For more detailed information about upcoming features and development plans, please refer to our GitHub Issues page.

Contributing

We welcome contributions from the community! If you're interested in contributing, please review our Contributing Guidelines for information on how to get started, coding standards, and the pull request process.

References

1. Messan, K. S., Kia, S. M., Narayan, V. A., Redmond, S. J., Kogan, A., Hussain, M. A., McKhann, G. M. II, & Vahdat, S. (2022). Assessment of Smartphone-Based Spiral Tracing in Multiple Sclerosis Reveals Intra-Individual Reproducibility as a Major Determinant of the Clinical Utility of the Digital Test. Frontiers in Medical Technology, 3, 714682. https://doi.org/10.3389/fmedt.2021.714682