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nipreps / dmriprep

dMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse dMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.
https://www.nipreps.org/dmriprep
Apache License 2.0
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OHBM OSR #102

Closed arokem closed 4 years ago

arokem commented 4 years ago

Submissions to the open science room close April 10th (https://ohbm.github.io/osr2020/submit/)!

Did you submit something @edickie?

josephmje commented 4 years ago

Thanks @arokem. Will post the abstract for discussion today.

josephmje commented 4 years ago

Editable version here: https://docs.google.com/document/d/19ZPEDYYBIDK9YvSusx8twQ-M7EJ-LKUiDRySSee9WFo/edit

Title: dMRIPrep - A Robust and Reproducible Pipeline for dMRI data Pre-Processing

Collaborators: https://github.com/nipreps/dmriprep/graphs/contributors Adam Richie-Halford Anisha Keshavan Michael Joseph Garikoitz Lerma-Usabiaga Derek Pisner Matthew Cieslak Erin Dickie Jelle Veraart Ross Lawrence Ariel Rokem Oscar Esteban

Theme: Open Workflows

Presentation Format: Lightning talk

Links: https://github.com/nipreps/dmriprep

Abstract (max 200 words):

dMRIPrep is an analysis-agnostic pipeline that seeks to address the challenge of robust and reproducible pre-processing for whole-brain dMRI data. The pipeline is based on Nipype and encompasses a large set of tools from other neuroimaging packages. It performs basic preprocessing steps such as head-motion correction, susceptibility-derived distortion correction, eddy current correction, etc., providing outputs that can be easily submitted to a variety of diffusion models. This pipeline was designed to provide the best software implementation for each state of preprocessing, and will be continually updated as better methods becomes available.

The Open Science Room is an excellent venue for dMRI enthusiasts to meet. We would like to demo dMRIPrep's core functionality and seek testing, feedback and contributions from the neuroimaging community. This talk will contain an interactive overview of dMRI data pre-processing with dMRIPrep, as well as highlight some novel methods and quality control visualizations being developed.

arokem commented 4 years ago

Looks great! I just fixed a small typo, but I think this is ready to go.

@josephmje : are you going to do the submission?

josephmje commented 4 years ago

Looks great! I just fixed a small typo, but I think this is ready to go.

@josephmje : are you going to do the submission?

Thanks for the edits @arokem! Yes, I can submit.

arokem commented 4 years ago

Awesome. Closing

josephmje commented 4 years ago

Our OSR talk has been accepted. They have asked to book a time for recording the talk at this link. I have temporarily booked Saturday June 6th at 11 am Mountain Time. However, I can change this to our typical meeting time on Tuesday if people like.

Also, I wasn't aware of this but all speakers in the OSR are required to be registered for OHBM. I am not sure if I am attending yet. I was only planning on going for the ReproNim fellowship and OHBM Hackathon.

edickie commented 4 years ago

@josephmje I think you should count in our lab's group registration this year. So wouldn't worry about that..

oesteban commented 4 years ago

@nipreps/dmriprep - link for the videocall tomorrow (12.30pm PST) - https://stanford.zoom.us/j/91491481620

josephmje commented 4 years ago

link for the recording tomorrow (10 am PST, 1 pm EST) - https://us02web.zoom.us/j/86518248310?pwd=c0hyUEpBQkpNMDdiRkhLWldHSEpKQT09