Magnetic software packages

This page depicts a collection of software packages for the processing of data for Magnetic Tissue Properties Mapping, including QSM, SWI, and STI. Please help us to stay updated by sending your suggestions to magneticadmin@emtphub.org.

• EMTP Study Group meeting 2021 Tools Roundup

QSM packages

Toolboxes

• SEPIA
  • including excessive number of common phase unwrapping, background field removal and dipole inversion methods (by Kwok-Shing Chan, RU)
• Neurodesk
  • including ROMEO, TGV, QSMxT (by Steffen Bollman et al.)
• MEDI (Cornell Group)
• STI Suite (by Chunlei Liu, UC Berkeley)
• JHUKKI QSM Toolbox (by Bergen + Li, JHU + KKI)
• FANSI (by Carlos Milovic, UC + UCL)
• QSM software (by Hongfu Sun, Ualberta)
• QSMxT pipeline (by Bollman + Stewart + Shaw, UQ)
• pyQSM (by Alan Kuurstra, UWO)

Single-step

• TGV (Neuroimaging Group – MUG)
• Water-fat TFI (by Christof Boehm, TUM)
• QSM software collection (by Berkin Bilgic, MGH)
  • including TGV and L2
• TV (by Alan Kuurstra, UWO)
• AutoQSM (AMRI-Lab)
• MoDL-QSM (AMRI-Lab)

Dipole inversion

• ALOHA (BISPL Lab)
• NDI (by Daniel Polak, Siemens Healthineers)
• QSM software collection (by Berkin Bilgic, MGH)
  • including BM4D; TGV; COSMOS; L1; L1 & L2; CF-L2
• QSMbox (by Julio Acosta-Cabronero, UCL)
• QSMnet & QSMnet⁺ (SNU-LIST Lab)
• TKD & Tikhonov (by Karsa & Shmueli, UCL)
• LPCNN (by Lai + Li + Sulam, JHU)

Phase unwapping

• ROMEO (by Korbinian Eckstein, MUW)
• SEGUE (by Anita Karsa, UCL)
• BEST PATH (by Alan Kuurstra, UWO)

Other

• Chi-separation (By Shin&Kim, SNU-LIST Lab)
• QSM ESP metric (by Maximilian N. Diefenbach, TUM)
• XSIM metric (by Carlos Milovic, PUCV)
• Deep Learning QSM tutorial (by Steffen Bollman, UQ)

SWI packages

• CLEAR-SWI (by Korbinian Eckstein, MUW)
  • included also in SEPIA and Neurodesk toolboxes
• SMwI (by SNU-LIST Lab)

STI packages

• STI Suite (by Chunlei Liu’s Lab, UC Berkeley)