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iso2mesh specifications


Unique identifier OMICS_29787
Name iso2mesh
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data A 3D binary image.
Operating system Unix/Linux, Mac OS, Windows
Programming languages MATLAB
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.8.0
Stability Stable
Maintained Yes




No version available


  • person_outline Qianqian Fang

Publication for iso2mesh

iso2mesh citations


fNIRS Optodes’ Location Decider (fOLD): a toolbox for probe arrangement guided by brain regions of interest

Sci Rep
PMCID: 5820343
PMID: 29463928
DOI: 10.1038/s41598-018-21716-z

[…] nd left/right preauricular points), which may be visually determined in head models.First, we converted the image file of the tissue segmentation into mesh by using the function ‘v2s’ provided in the iso2mesh toolbox,. We also corrected the coordinates to MNI space by accounting for the voxel size and origin of the image. After plotting the corrected mesh in Matlab2017a, we visually identified fou […]


Three dimensional architecture of the whole human soleus muscle in vivo

PMCID: 5910694
PMID: 29682414
DOI: 10.7717/peerj.4610

[…] From the segmentations, 3D triangulated surface models were created for all compartments using the MATLAB-based iso2mesh toolbox ( and ; ). Muscle volume of each compartment was calculated as the volume of the surface models. Muscle length was calculated as the distance between the most proximal and the most di […]


Subject specific multi poroelastic model for exploring the risk factors associated with the early stages of Alzheimer's disease

Interface Focus
PMCID: 5740222
PMID: 29285346
DOI: 10.1098/rsfs.2017.0019

[…] eral algorithms, including both publicly available sources in addition to newly developed ones. The references for the tools used in this workflow can be found in [] (TORTOISE), [] (NiftyReg) and [] (ISO2Mesh). The first step of this workflow is image segmentation, which features detailed subcortical (including the ventricular system) and whole-brain segmentation of T1w-MR images. Fully automatic […]


Quality improvement of surface triangular mesh using a modified Laplacian smoothing approach avoiding intersection

PLoS One
PMCID: 5590917
PMID: 28886110
DOI: 10.1371/journal.pone.0184206

[…] O2mesh is a free matlab/octave-based mesh generation and processing toolbox. We use the meshresample and smoothsurf modules in ISO2mesh to improve the initial meshes. To make the improved meshes from ISO2mesh comparable to those from SMOPT, in the meshresample module, we set the vertex number in output meshes from ISO2mesh close to those from SMOPT. In the smoothsurf module of ISO2mesh, the Laplac […]


iElectrodes: A Comprehensive Open Source Toolbox for Depth and Subdural Grid Electrode Localization

Front Neuroinform
PMCID: 5333374
PMID: 28303098
DOI: 10.3389/fninf.2017.00014
call_split See protocol

[…] e) (Jenkinson et al., ). The brain stem structure and the cerebellum were removed, and left and right hemispheres were split. The image was processed with the vol2surf function (“cgalsurf” method) in ISO2Mesh toolbox for MATLAB (Fang and Boas, ). A tetrahedral mesh surface of the brain cortex was obtained for each hemisphere, the so called SCE.Grid electrodes were projected to this surface while m […]


The Effect of a Transcranial Channel as a Skull/Brain Interface in High Definition Transcranial Direct Current Stimulation—A Computational Study

Sci Rep
PMCID: 5233984
PMID: 28084429
DOI: 10.1038/srep40612

[…] ll (). The diameters of the shaft varied from 1 to 9 mm and we set the diameter of the hat to the shaft diameter +1 mm.3D-optimized tetrahedral volume mesh was constructed from the surface mesh using iso2mesh and tetgen. There were approximately 18 million total tetrahedral elements, with far smaller elements distributed around the electrode, transcranial channel, and regions of interest (ROIs) in […]

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iso2mesh institution(s)
Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA
iso2mesh funding source(s)
Supported by NIH R01EB006385 and R01CA097305.

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