Mailman 3 February 2023 - DIPY

ANN: DIPY 1.6.0
by Eleftherios Garyfallidis 28 Feb '23

28 Feb '23

Hello all, We are excited to announce a new release of DIPY: DIPY 1.6.0 is out from the oven! In addition, registration for the oceanic DIPY workshop 2023 (April 24-28) is now open! Our comprehensive program is designed to equip you with the skills and knowledge needed to master the latest techniques and tools in structural and diffusion imaging. An intense hands-on experience in Santa Monica, Los Angeles! See the exquisite program here <https://dipy.org/workshops/dipy-workshop-2023#Schedule> for this highly anticipated event <https://dipy.org/workshops/dipy-workshop-2023>. DIPY 1.6.0 (Monday, 16 January 2023) The release 1.6.0 received contributions from 22 developers (the full release notes are at: https://dipy.org/documentation/1.6.0./release_notes/release1.6/). Thank you all for your contributions and feedback! Please click here <https://dipy.org/documentation/1.6.0./api_changes/#dipy-1-6-0-changes> to check 1.6.0 API changes. Highlights of 1.6.0 release include: - NF: Unbiased groupwise linear bundle registration added. - NF: MAP+ constraints added. - Generalized PCA to less than 3 spatial dims. - Added positivity constraints to QTI. - New functionality to apply Symmetric Diffeomorphic Registration to points/streamlines. - New Human Connectome Project (HCP) data fetcher added. - New Healthy Brain Network (HBN) data fetcher added. - Multiple Workflows updated (DTIFlow, LPCAFlow, MPPCA) and added (RUMBAFlow). - Ability to handle VTP files. - Large codebase cleaning. - Large documentation update. - Closed 75 issues and merged 41 pull requests. To upgrade or install <http://dipy.org/release0.10.html> DIPY Run the following command in your terminal: <http://dipy.org/release0.10.html> pip install --upgrade dipy or conda install -c conda-forge dipy This version of DIPY depends on nibabel (3.0.0+). For visualization you need FURY (0.8.0+). Please support us by citing DIPY in your papers using the following DOI: 10.3389/fninf.2014.00008 <https://www.ncbi.nlm.nih.gov/pubmed/24600385> Questions or suggestions? For any questions go to https://dipy.org, or send an e-mail to dipy(a)python.org <neuroimaging(a)python.org> We also have an instant messaging service and chat room available at https://gitter.im/dipy/dipy Finally, a new forum is available at https://github.com/dipy/dipy/discussions Have a wonderful time using the new version. On behalf of the DIPY developers, Eleftherios Garyfallidis, Ariel Rokem, Serge Koudoro https://dipy.org/contributors

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Postdoctoral Position at DIPY HQ - Starting Summer/Fall 2023
by Eleftherios Garyfallidis 23 Feb '23

23 Feb '23

Hello all, We are excited to announce a new Postdoctoral position here at Indiana University. The Postdoc will focus on improving DIPY' s statistical and machine learning capabilities. Professor Jaroslaw Harezlak (cc'ed) and myself will be supervising the work. Formal information about this position (and how to apply) is provided here https://indiana.peopleadmin.com/postings/16773 Happy to answer any questions you may have. Best regards, Eleftherios Garyfallidis, PhD Associate Professor Intelligent Systems Engineering Indiana University Luddy Hall 700 N Woodlawn Bloomington, IN 47408 GRG <https://grg.luddy.indiana.edu/> | DIPY <http://dipy.org/> | FURY <https://fury.gl/>

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AI for Neuro summer school in Sicily 2023
by Alex Crimi 16 Feb '23

16 Feb '23

| | | | Dear Dipiers, We would like to invite you to the 2nd international Summer School on Neuroimaging, NeuroScience, Neuroncology This year will focus mostly in AI for temporal patterns, and Glioblastoma 25th–29 June, 2023, Aktea Hotel, Lipari, Italy https://www.neurosummerschool.org The event is also related to a special issue of Frontiers In Neuroimaging: https://www.frontiersin.org/research-topics/53517/brain-time-series-signals… We will have 2 sessions where participants can brainstorm and potentially prepare papers for the issue assisted. Scope: The school is aimed at providing lectures and workshops about Neuroimaging, NeuroScience, Neuroncology for PhD students, post-doctoral researchers, and faculty/company members. Program comprises lectures and workshops with * Gael Varoquaux (INRIA, École normale supérieure, Scikit-learn) * Paul Thompson (UCLA, NIGMA consortium) * Luiz Pessoa (Maryland University) * Stephanie Forkel (Donders Institute) * Bozena Kaminska (Nencki Institute) * Giovanni Petri (CENTAI) * Daniel Margulies (CNRS) * Norbert Galldiks (Koeln University Hospital, Juelich Centrum) * Aly Abayazeed (Neosoma) * Lee Alex Donald Cooper (Northwestern University, Feinberg School of Medicine) * Susan Short (School of Medicine Leeds) * Andras Jakab (Children university hospital of Zurich) Organizing committee * Alessandro Crimi, Brian&More lab of Sano Science (Krakow, Poland) * Spyridon Bakas, Pereleman School of Medicine of University of Pennsylvania (Philadelphia, USA) We invite you to lectures by well-known worldwide speakers, workshops, and tutorials. Complete program will be posted. Climbing the sulphuric crater of Vulcano is planned, as well as a boat trip to Panarea lagoons and around the active volcano of Stromboli. The brainstorming sessions are planned at the Greek necropolis. We currently limit to 70 participants, with no particular pre-selection (First-Registered-First-Served). Further cases will be considered carefully according the CV. See you in Lipari.

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Re: Hotel Block for DIPY Workshop
by Eleftherios Garyfallidis 15 Feb '23

15 Feb '23

Hi Meghan, Yes, of course. Please check again our workshop website in a couple of days. You will find that information under the Venue section. Best, Elef On Wed, Feb 15, 2023 at 11:07 AM Meghan Griffin via DIPY <dipy(a)python.org> wrote: > Hello, > I was wondering if there will be a room block at the hotel with a group > rate for the upcoming DIPY workshop. If so, could you please let me know > the estimated rate? > > Thank you, > Meghan Griffin > > > -- > *Meghan Griffin* > *Pronouns: she/her/hers* > *PhD student, **Biomedical Engineering* > *McAlpine Research Group > <https://sites.google.com/view/mcalpineresearchgroup/home?authuser=0>* > *University of Minnesota - Twin Cities* > grif0599(a)umn.edu >

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Hotel Block for DIPY Workshop
by Meghan Griffin 15 Feb '23

15 Feb '23

Hello, I was wondering if there will be a room block at the hotel with a group rate for the upcoming DIPY workshop. If so, could you please let me know the estimated rate? Thank you, Meghan Griffin -- *Meghan Griffin* *Pronouns: she/her/hers* *PhD student, **Biomedical Engineering* *McAlpine Research Group <https://sites.google.com/view/mcalpineresearchgroup/home?authuser=0>* *University of Minnesota - Twin Cities* grif0599(a)umn.edu

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Registration for DIPY Workshop 2023 is now open! April 24-28, Santa Monica, CA
by Eleftherios Garyfallidis 13 Feb '23

13 Feb '23

Hello all, We are excited to announce that the registration for the DIPY Workshop 2023 is now open! Registration, program and more information is available at https://dipy.org/workshops/latest. This is an in person event. This year we are introducing a full day of Preprocessing (a challenging problem) and discussing new topics in Reconstruction, Microstructure Modeling, Denoising, Tractography, Tractometry and Visualization! In addition, Matthew Brett will talk about Nibabel which is an important project that has been developed in parallel with DIPY from the early days of the creation of Neuroimaging in Python. Other guest speakers include Jason Yeatman from Stanford and Sarah Heilbronner from UMN. The DIPY Workshop 2023 will take place on April 24-28 (Monday to Friday, 9 AM to 6 PM) by the ocean in beautiful Santa Monica (Los Angeles, California). The conference will be held at Le Merigot Hotel. Unlimited coffee, breakfast and snacks will be provided. In addition, - Sessions for guided practice (hands-on) will be available every day. - Attendees can present their work or problems of interest. - Certificates of attendance will be provided. Finally, a limited number of seats are provided. Register today! On behalf of the DIPY team, Eleftherios Garyfallidis, PhD Associate Professor Intelligent Systems Engineering Indiana University Luddy Hall 700 N Woodlawn Bloomington, IN 47408 GRG <https://grg.luddy.indiana.edu/> | DIPY <http://dipy.org/> | FURY <https://fury.gl/>

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