An image analysis pipeline for the semi-automated analysis of clinical fMRI images based on freely available software

Christof Karmonik, Michele York, Robert G. Grossman, Ekta Kakkar, Krutina Patel, Hani Haykal, David E. King

Research output: Contribution to journalArticle

5 Scopus citations

Abstract

The technique of functional Magnetic Resonance Imaging (fMRI) has evolved in the last 15 years from a research concept into a clinically relevant medical procedure. In this study, an efficient, semi-automated and cost-effective solution for the analysis of fMRI images acquired in a clinical setting is presented relying heavily on open source software. The core of the pipeline is the software Analysis of Functional NeuroImages (AFNI, National Institute of Mental Health (NIMH)) combined with K-PACS and ImageJ. Its application is illustrated with clinical fMRI exams and with a research study involving comparing subjects diagnosed with Parkinson's disease and age-matched controls.

Original languageEnglish (US)
Pages (from-to)279-287
Number of pages9
JournalComputers in Biology and Medicine
Volume40
Issue number3
DOIs
StatePublished - Mar 2010

Keywords

  • Automated image analysis
  • Brain activation
  • Clinical fMRI
  • Functional magnetic resonance imaging
  • Image analysis pipeline

ASJC Scopus subject areas

  • Computer Science Applications
  • Health Informatics

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