Michael Joseph

Dockerfile request

1

I'm interested in running WMA on a compute cluster. I was wondering whether you have a Dockerfile that includes the installation of Slicer, Slicer dMRI, WMA and the ORG-Atlases? If...

Proposing new OSF repository

6

If we move to using NeuroLibre to host this content, we will be using [Repo2Data](https://github.com/SIMEXP/Repo2Data) to download the pre-processed data from OSF. Repo2Data cannot use the `fetch` command to download...

ENH: Update Intro to Diffusion episode

1

I'm working on an update to the Intro to Diffusion episode (1). Here's an initial render of it: http://www.nipreps.org/nipreps-book/dwi/02-intro_dmri.html Still needs more work but what I'd really like to include...

ENH: Optional preprocessing steps for denoising, unringing and upsampling

3

I'm relatively new to dwi preprocessing. Would adding the following steps (added the mrtrix commands) as optional steps before eddy be useful? - denoising (`dwidenoise`) - unringing (`mrdegibbs`) - upsampling...

This could contain a guide to which parts of the lesson to skip or emphasize or highlight a few different ways to teach the lesson in order to fill out...

These can be found by running `make lesson-check`: - [ ] index.md:6:FIXME: home page introduction - [ ] index.md:14:> FIXME - [ ] reference.md:7:FIXME - [ ] _extras/discuss.md:4:FIXME - [...

Trouble decoding and encoding twix VB format during anonymization

7

Hi, I'm having some trouble with the anonymize_twix() function. My file is read as the VB format. Decoding to windows-1252 produces the error: ```UnicodeDecodeError: 'charmap' codec can't decode byte 0x8f...