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Description

KEY RESPONSIBILITIES:

Enhancement of Annotation Pipeline and Detection Model Using QuPath and Python

Background :

The purpose of this project is to enhance the existing multinucleation annotation pipeline using QuPath and Python to increase the training dataset size. Additionally, the project aims to improve the performance of the multinucleation detection model through iterative development and testing.

Objectives :

• Develop and integrate scripts to automate the annotation process using QuPath and Python.

• Increase the size and diversity of the training dataset.

• Train, validate, and test the model iteratively to achieve better performance metrics.

Scope of Work :

The intern will undertake the following tasks:

Dataset Expansion

• Collect and preprocess new data from various sources (Oral cavity and Oropharynx).

• Communicate with pathologist for annotation verification.

• Regularly update the training dataset with new, high-quality annotations.

Model Improvement

• Train the Yolov8 model using the expanded dataset.

• Evaluate model performance using standard metrics (e.g., precision, recall, F1-score).

Deliverables :

Expanded Training Dataset :

• Curated dataset with new annotations.

• Metadata and documentation for the dataset.

Improved Detection Model :

• Trained model with performance reports.

Timeline :

Week 1: Review of current dataset, and the detection pipeline.

Week 2: Dataset preparation

Week 3: Model fine-tuning with the expanded dataset.

Week 4: Model performance, Report writing and presentation.

Reporting and Supervision :

The intern will report to supervisor on a weekly basis, providing updates on progress and any issues encountered. Regular meetings will be scheduled to discuss progress and provide guidance.

Emory Supports a Diverse and Inclusive Culture

Emory University is dedicated to providing equal opportunities and equal access to all individuals regardless of race, color, religion, ethnic or national origin, gender, genetic information, age, disability, sexual orientation, gender identity, gender expression, and veteran's status. Emory University does not discriminate in admissions, educational programs, or employment on the basis of any factor stated above or prohibited under applicable law. Students, faculty, and staff are assured of participation in University programs and in the use of facilities without such discrimination. Emory University complies with Executive Order 11246, as amended, Section 503 of the Rehabilitation Act of 1973, the Vietnam Era Veteran's Readjustment Assistance Act, and applicable executive orders, federal and state regulations regarding nondiscrimination, equal opportunity and affirmative action. Emory University is committed to achieving a diverse workforce through application of its affirmative action, equal opportunity and nondiscrimination policy in all aspects of employment including recruitment, hiring, promotions, transfers, discipline, terminations, wage and salary administration, benefits, and training. Inquiries regarding this policy should be directed to the Emory University Department of Equity and Inclusion, 201 Dowman Drive, Administration Building, Atlanta, GA 30322.

Emory University is committed to providing reasonable accommodations to qualified individuals with disabilities upon request. To request this document in an alternate format or to request a reasonable accommodation, please contact the Department of Accessibility Services at 404-727-9877 (V) | 404-712-2049 (TDD). Please note that one week advance notice is preferred.

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Job Number 132255

Job Type Temporary Full-Time

Division School Of Medicine

Department SOM: BME: Admin

This position may involve the following Health and Safety issues: Working in a laboratory

Job Category Laboratory Research

Campus Location (For Posting) : City Atlanta

Location : Name Emory Campus-Clifton Corridor