The Cortical Explorer – A Web-based user-interface for the exploration of the human cerebral cortex

Due to the immense complexity of the brain’s neural network, research into the brain is performed at a hierarchy of scales. One common holistic approach is to model the brain, at a coarse scale, as consisting of a relatively small number of functionally specialised regions, connected in a network, known as the connectome. Recent advances… Continue reading The Cortical Explorer – A Web-based user-interface for the exploration of the human cerebral cortex

Forget weak statistics, fMRI studies suffer from oversimplified assumptions made during pre-processing

Functional Magnetic Resonance Imaging (fMRI) has been under intense scrutiny this summer following concerns over the replicability, and  claims that up to  40, 000 studies may be invalidated by poor statistics . Unfortunately, despite being a powerful resource for non-invasive exploration of brain function, fMRI signals are an indirect measure of brain activity, that suffer from many… Continue reading Forget weak statistics, fMRI studies suffer from oversimplified assumptions made during pre-processing

Clever Robots: Understanding Artificial Intelligence in the context of our own minds

***note the slides that accompanied the Imperial Festival Presentation of this theme***  are attached below ImperialFestivalprepFINAL With the sudden emergence of real-world artificial intelligence (AI) applications such as Google DeepMind’s #alphago, decisively beating human Go champion, Lee Sedol[1]; Samsung releasing an AI for breast cancer detection [2]; and Microsoft announcing a deep learning application for the… Continue reading Clever Robots: Understanding Artificial Intelligence in the context of our own minds

***Unofficial*** Guide to the HCP surface file formats

The WU-Minn Human Connectome Project has provided an immensely powerful resource of 1000 adult subjects functional and structural imaging data, all projected to the surface. This resource has already begun to generate high impact publications and huge leap forwards in understand macroscale brain structure and its influences on human behaviour [1][2]. Nevertheless the data sets… Continue reading ***Unofficial*** Guide to the HCP surface file formats

Multimodal Surface Matching (MSM): a flexible tool for aligning generic data on the cortical surface

Let’s say you have run a functional imaging experiment on a group of different subjects: you have asked all the subjects to perform a task in the scanner, and you want to know whether the response of all subjects to that task is the same. For example, you have some healthy subjects, and some with… Continue reading Multimodal Surface Matching (MSM): a flexible tool for aligning generic data on the cortical surface

Tricks to Implementing QPBO and the ELC: MRF optimisation library

It seems that many people are having trouble compiling Kolmogorov’s QPBO MRF optimisation library for Mac OS, and clang. So, I thought I’d post some tips on how I did it, albeit with considerable help from those more knowledgeable in good c++ practice than myself! There seems to be a problem with the implementation of… Continue reading Tricks to Implementing QPBO and the ELC: MRF optimisation library