Resources

This page offers a range of resources for those using tools developed in furtherance of the CMM’s goals. The resources are listed under their respective projects.

 

TRD 1: Cross-scale integration and modeling

 

  • FreeSurfer — An open source neuroimaging toolkit for processing, analyzing, and visualizing human brain MR images

 

TRD 2: Improved spatio-temporal acquisitions for in vivo mesoscale functional/structural MR imaging

 

Echo Planar Time-resolved Imaging

  • Echo Planar Time-resolved Imaging (EPTI) portal — CMM researchers developed this website to serve as a resource for people seeking to learn more about this technology, which seeks to address the limitations of echo-planar imaging (EPI), one of the most-widely used MRI acquisition and the standard readout methods

Quantitative imaging

  • Rapid T1, T2, PD parameter mapping with 3d MR Fingerprinting (developed by Drs Liao and Cao, Stanford University) — IDEA pulse sequence and offline reconstruction code for VE and XA baselines on martinos.org/c2p. See here for further details.
  • Highly accelerated T2* and susceptibility mapping with Wave-GRE — Open-source Pulseq sequence and offline reconstruction code are available here and here
  • Rapid T1, T2, PD parameter mapping with 3d QALAS (developed by Dr Gagoski, Boston Children’s Hospital) — IDEA pulse sequence and online reconstruction code for VE and XA baselines on Siemens C2P Exchange parameter mapping estimation from the reconstructed Dicoms are available here and here. Offline code for self-supervised subspace reconstruction can be found here.

Diffusion Imaging

  • gSlider for high-resolution diffusion imaging. IDEA sequence (with online reconstruction) for VE and XA baselines is available on martinos.org/c2p
  • BUDA-gSlider for distortion-free, high-resolution diffusion imaging. IDEA sequence and offline reconstruction code for VE baseline is available on martinos.org/c2p. See here for further details.
  • Open dataset for submillimeter diffusion MRI on Connectome 1.0 — With unprecedented resolution, SNR and image quality, this dataset will advance the understanding of human brain structures and connectivity through a wide range of applications. See also here for a summary of the work.

 

TRD 3: Removing the biological limits for in vivo human brain MRI

 

 

TRD 4: Integrating electromagnetic multichannel brain stimulation and recording technologies