Name: Soichi Hayashi
Type: User
Company: brainlife.io @ Indiana University
Bio: A software engineer @ brainlife.io. Making supercomputers more accessible for researchers and scientists.
Twitter: soichih
Location: Bloomington, Indiana
Blog: http://soichi.us
Soichi Hayashi's Projects
test repo for git annex
This application converts Freesurfer's pial and white matter surfaces to different file types. It will convert the lh/rh.pial, lh/rh.white, lh/rh.smoothwm, lh/rh.inflated files into your choice of file type (stl, vtk, gii, mgz)
App to plot the fibers outputted from AFQ
An application to provide cleaning of AFQ output
Sample app to generate some random stats from anatomy
Brainlife.io app for Noah Benson's neuropythy library, retinotopy from T1 anatomy
Run HCP Pipeline powered by BIDS app
BIDS app for FS Tracula for BrainLife. Implements Freesurfer's TRACULA (TRActs Constrained by UnderLying Anatomy) tool.
computes the volume of binary nifti images
Clever
fMRI preprocessing via CONN
This service will convert mrtrix tck files to tractvis trk files
This application will crop and reorient the T1 image to standard orientation and FOV using FSL's fslreorient2std and robustfov.
A sample brainlife app that uses EEG data (fif)
fmriprep outputs to connectivity matrices
app to generate binary masks of the segmented fiber tracts
app to generate surfaces of each fiber tract
BIDS app for HCP post-FreeSurfer for BrainLife. Outputs include surface topologies and features resampled onto the high (164k) dimensional atlas space as well as myelin mappings. (Please see https://github.com/Washington-University/HCPpipelines/wiki/v3.4.0-Release-Notes,-Installation,-and-Usage#structural-preprocessing for more information on HCP structural pipelines.)
BIDS app for HCP pre-FreeSurfer for BrainLife
app to calculate the Laplace Beltrami spectrum using mindboggle
Application to calculate the Laplace Beltrami Spectrum and Eigenvectors using Matlab.
Merge multiple TCK files into one TCK file.
Pipeline for mouse brain skull-stripping and ROI segmentation
Removes noise in an MP2RAGE_UNI.nii.gz image given a user-provided regularization parameter (see app-mp2rage-selectregparam).
brainlife.io version of maTT
more flexible network app
Build structural brain networks using diffusion-weighted MRI, tractography and a brain atlas for cortical and subcortical parcellation.