Containers
ReproNim Talk about Neurodesk
I was recently invited to talk about Neurodesk in the ReproNim webinar. The recording of the talk is available here: The slides are available here:
I was recently invited to talk about Neurodesk in the ReproNim webinar. The recording of the talk is available here: The slides are available here:
This week I gave a talk about the Open Data ecosystem and how our open-source project https://NeuroDesk.org makes it very easy to access and publish open data. Here is the recording: Here are the slides:
Our latest work is out in eLife: https://elifesciences.org/articles/71186 We show how small pial arteries can be targeted effectively with high-resolution in vivo MR imaging. The data is openly available (https://doi.org/10.17605/OSF.IO/NR6GC) and may be used for building models of brain physiology. The pial arterial vasculature of the human brain is the Read more…
Sometimes it’s necessary to downgrade packages in google colab to restore compatibility with an older version (e.g. pytorch). One way of doing this is using conda within colab and a few tricks make this work. Here is the colab notebook: https://colab.research.google.com/drive/1W5UnflB8m1zo6lP1y11V78QczMRBI0FE?usp=sharing Here a quick code gist:
Our article “QSMxT: Robust masking and artifact reduction for quantitative susceptibility mapping” was just published in MRM 🙂 In this article we developed an automated, scalable, and robust QSM workflow that starts from Dicom images and produces segmentations of regions of interest: The full paper is here (unfortunately behind a Read more…
We had the fantastic opportunity to present the neurodesk project in today’s ANZ ISMRM reproducibility workshop. The 50 participants across Australia got to see the first live demo of the project and I am glad everything worked out and ran smoothly 🙂 We will post the recordings as soon as Read more…
I recently had the wonderful opportunity to present our deep learning work in magnetic resonance imaging at the ML4AU CoP showcase event to more than 65 participants. I showed one example on efficiently solving an ill-posed inverse problem for quantitative susceptibility mapping that was trained with purely synthetic data describing Read more…
For the OHBM 2021 I created a short 2 minute summary of our NeuroDesk project 🙂
Our latest preprint describes the QSMxT pipeline developed by Ashley Stewart – a CIBIT PhD student in our team: QSMxT enables robust & automated quantitative susceptibility mapping and extraction of quantitative information from regions of interest. The code can be found here: https://github.com/QSMxT/QSMxT The preprint is here: QSMxT: Robust Masking Read more…
We were very fortunate to be highlighted in MRM for our paper “Improving FLAIR SAR efficiency at 7T by adaptive tailoring of adiabatic pulse power through deep learning B1+ estimation” and the reproducible research habits in our group 🙂 The interview covering the contents of the paper can be found Read more…