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markmikkelsen/README.md

Hi, I'm Mark Mikkelsen 👋

I’m a neuroimaging research scientist specializing in human magnetic resonance spectroscopy (MRS), advanced MRI methods, and reproducible scientific software.

My work focuses on translating complex MR data into reliable measures of brain chemistry through acquisition optimization, signal processing, quantitative analysis, quality control, and multi-site harmonization.

Research and technical interests

  • In vivo proton MRS and edited MRS
  • Spectral processing, modeling, and quantification
  • Imaging biomarkers and translational neuroscience
  • Multi-site harmonization and reproducibility
  • Open data standards, including BIDS and NIfTI-MRS
  • Automated analysis and signal processing pipelines

Selected projects

  • Gannet — MATLAB software for processing, modeling, quantifying, and visualizing edited MRS data
  • BIDS — an open standard for organizing and interacting with biomedical data and metadata according to FAIR guidelines
  • MRS-BIDS — an extension of BIDS for MRS (now merged)

Tools

MATLAB · Python · R · Git/GitHub · BIDS

Let's connect

I’m interested in collaborations and senior scientific opportunities involving advanced MRI/MRS, imaging biomarkers, translational neuroscience, and reproducible scientific software.

📧 mark.mikkelsen@gmail.com

Pinned Loading

  1. Gannet Gannet Public

    Gannet is a free, open-source MATLAB-based software toolkit for analyzing edited 1H magnetic resonance spectroscopy (MRS) data.

    MATLAB 12 13

  2. Gannet-docs Gannet-docs Public

    Documentation for the Gannet software toolkit.

    HTML 1

  3. Gannet-docs-code Gannet-docs-code Public

    Code for the Gannet documentation website.

    TeX 2

  4. bids-specification bids-specification Public

    Forked from bids-standard/bids-specification

    Brain Imaging Data Structure (BIDS) Specification

    Python 1