Recently, my adviser Peter Bandettini asked me to compile a list of all potential applications for layer-fMRI. It was a fun exercise to think about it. Below, you find a list of all potential applications that I could think of. Continue reading “List of potential layer-fMRI application studies”
Author: renzohuber
How to install nifty QuickLook
In this blogpost I describe how to install the DTI-TK NIfTI quicklook plugin for nii files for mac OS.
3D-printing nii data
In this blog post, I want to write about pipelines on how to prepare Nifti-brain data and make them printable by a 3D-printer.
Two pipelines are shown. One pipeline describes the 3D-printing the cortical folding structure that is estimated with Freesurfer and subsequently corrected with Meshlab. And another pipeline describes how you can 3D-print any binary nii-volume by using the AFNI-program IsoSurface and correct the output with netfabb. Continue reading “3D-printing nii data”
How to convert any paper figure into a layer-profile
Often we would like to normalize depth-dependent fMRI signals and assign it to specific cytoarchitectonially defined cortical layers. However, we often only have access to cytoarchitectonial histology data in the form to figures in papers. But since we only have the web-view or the PDF available, we cannot easily extract those data as a layer-profile. Since most layering tools are designed for nii data only, paper figures (e.g. jpg or GNP) are not straight-forwardly transformed to layer profiles.
In this blob post, I describe a set of steps on how to convert any paper figure into a nii-file that allows the extraction of layer profiles.
Continue reading “How to convert any paper figure into a layer-profile”
GRAPPA regularization
In this blog post I want to discuss how the tSNR in sub-millimeter fMRI can be substantially improved by optimizing the GRAPPA regularization. Adjusting one single GRAPPA reconstruction parameter can almost double the tSNR of your fMRI time series. With almost no penalty.
layer-fMRI abstracts at ISMRM and HBM 2018
The following is a personal selection of my must-see layer-fMRI abstracts presented at ISMRM and HBM in 2018. If I missed something, please let me know.
Continue reading “layer-fMRI abstracts at ISMRM and HBM 2018”
Renzos Power-Point Slide Repository
This post contains a collection of recently presented powerpoint slides.
