Job Description

Payroll Title:
Salary Range
Commensurate with Experience
La Jolla
Appointment Type:
Appointment Percent:
Total Openings:
Work Schedule:
Days, 8 hrs/day, Monday - Friday

As a federally-funded institution, UC San Diego Health maintains a marijuana and drug free campus. New employees are subject to drug screening.

#109259 Applications Programmer II

Initial Review Date: Mon 11/15/2021

For the safety and well-being of the entire university community, the University of California requires, with few exceptions, that all students, faculty and staff be vaccinated against the COVID-19 virus and influenza before they will be allowed on campus or in a facility or office. For more information visit: Flu Vaccine Mandate / COVID Vaccine Policy

UCSD Layoff from Career Appointment: Apply by 05/07/21 for consideration with preference for rehire. All layoff applicants should contact their Employment Advisor.

Special Selection Applicants: Apply by 05/19/21. Eligible Special Selection clients should contact their Disability Counselor for assistance.

This position will remain open until a candidate has been successfully identified.


UCSD Department of Radiology is one of the most innovative and productive academic departments in the country, offering challenging career opportunities in the diverse areas of advanced educational programs, leading-edge research, and state-of-the-art services for clinical and translational studies. The department is committed to offering a dynamic learning environment and growth opportunities to its talented and dedicated employees.

Applies professional programming concepts for small to medium-sized projects or portions of larger projects. Resolves a variety of programming design and implementation issues. Works on programming assignments of moderate scope where analysis of situations or data requires a review of a variety of factors.

Under supervision, implement image processing methods for multimodality neuroimaging data, including structural, diffusion, and functional magnetic resonance imaging (MR)I data. This will include the creation or modification of software workflows, also known as processing pipelines; the functions of which include: preprocessing T1- and T2-weighted structural images, high-resolution multi-shell dMRI data, and high spatial and temporal resolution fMRI data, automated quality control, tools for manual quality control, intensity nonuniformity correction and cross-site standardization, diffusion model fitting, refinements to cortical surface reconstruction, extracting morphometric and diffusion and intensity-based measures for regions of interest, task-related analysis, resting-state connectivity analysis, extracting functional and summary measures for regions of interest, and data format conversions. Participate as a member of a multi­disciplinary research team in designing, implementing, and documenting data processing pipelines. Support users by effective training and documentation of provided tools.


  • Six (6) years of related experience, education/training, OR a Bachelor’s degree in related area plus two years of related experience/training

  • Proven experience in programming with one or more of the following: Matlab, python R, C, C++, SQL, or web-based application development.

  • Extensive experience using the Linux operating system. Demonstrated ability for scripting complex workflows, Linux command line, linux tools.

  • Knowledge of secure software development. Ability to gather technical information on neuroimaging software packages with some initial guidance.

  • Intermediate skills associated with the design, development, modification and deployment of software, including object-oriented programming concepts.

  • Thorough knowledge of other IT related areas.

  • Demonstrated software repository skills.

  • Proven experience with common programming tools. Experience in programming with MATLAB.

  • Ability to follow software specifications. Ability to participate in multi-disciplinary software development and implementation of training materials.

  • Effective communication and interpersonal skills. Ability to effectively communicate with non-technical users including being able to write clearly and concisely.

  • Strong ability to communicate technical information to technical and non-technical personnel at various levels in the organization.

  • Familiarity with structural, diffusion, and functional MRI research.


  • Experience with software tools for processing multimodality neuroimaging data.
  • Familiar with the ABCD Study and MRI imaging.


  • Employment is subject to a criminal background check.
  • Must be able to work overtime as needed.
  • Must be flexible and able to work some evenings and weekends.
  • Must have access to reliable transportation; be able to work in several locations (e.g. Main Campus, UCSD Medical Center).

Job offer is contingent on successful engagement in the UC COVID-19 Vaccination program (fully vaccinated with documented proof or approved exception/deferral).

UC San Diego Health is the only academic health system in the San Diego region, providing leading-edge care in patient care, biomedical research, education, and community service. Our facilities include two university hospitals, a National Cancer Institute-designated Comprehensive Cancer Center, Shiley Eye Institute, Sulpizio Cardiovascular Center, and several outpatient clinics. UC San Diego Medical Center in Hillcrest is a designated Level I Trauma Center and has the only Burn Center in the county. We invite you to join our dynamic team!

Applications/Resumes are accepted for current job openings only. For full consideration on any job, applications must be received prior to the initial closing date. If a job has an extended deadline, applications/resumes will be considered during the extension period; however, a job may be filled before the extended date is reached.

UC San Diego Health is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, national origin, disability, age, protected veteran status, gender identity or sexual orientation. For the complete University of California nondiscrimination and affirmative action policy see:

UC San Diego is a smoke and tobacco free environment. Please visit for more information.

Application Instructions

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