Mailman 3 April 2022 - DIPY

Research Collaborations - start in 15min
by Serge K. April 28, 2022

April 28, 2022

Hi All, In 15 min starts the Research Collaborations session. This is an initiative to help researchers and clinical practitioners to accelerate the use of DIPY as a part of their work. Feel free to book a time at the following link: DIPY_Office_Hours <https://docs.google.com/spreadsheets/d/1IVaixEbjKQqS2MrZHw1L2Gso8a0GannT19G…> Then, you can join at https://iu.zoom.us/j/84926066336 May your data live a new life! On Behalf of the DIPY Team, *Serge Koudoro* Software Developer Intelligent Systems Engineering Garyfallidis Research Group <https://grg.luddy.indiana.edu/> School of Informatics, Computing, and Engineering Luddy Hall 700 N Woodlawn Ave, 4056 Bloomington, IN 47408 skoudoro(a)iu.edu <skoudoro(a)indiana.edu>

1 0

Invitation 1st international Summer School on Neuroimaging, NeuroScience, Neuroncology
by Joan Falco Roget April 27, 2022

April 27, 2022

Dear Diffusion Imaging Colleagues, We would like to invite you to 1st international Summer School on Neuroimaging, NeuroScience, Neuroncology 4–9 July, 2022, Aktea Hotel, Lipari, Italy https://www.neurosummerschool.org A first edition of the Sano Summer School dedicated to bridging global neuroscience world. 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 * Karl Friston * Alain Chedotal * Danielle Bassett * Luiz Pessoa * Bozena Kaminska * Randy Mcintosh * Walter Riviera * Marcin Wierzbinski * Mara Cercignani * Martijn van den Heuvel * Andras Jakab Organizing committee * Alessandro Crimi, Brian&More lab of Sano Science (Krakow, Poland) * Spyridon Bakas, Pereleman School of Medicine of University of Pennsylvania (Philadelphia, USA) Except further COVID-19 restrictions, with the idyllic landscape of the Aeolian islands, 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. Due to Covid restrictions we will limit to 70 participants, with no particular pre-selection (First-Registered-First-Served) See you in Lipari. Best, Joan

1 0

Invitation 1st international Summer School on Neuroimaging, NeuroScience, Neuroncology
by Joan Falco Roget April 27, 2022

April 27, 2022

Dear Diffusion Imaging Colleagues, We would like to invite you to 1st international Summer School on Neuroimaging, NeuroScience, Neuroncology 4–9 July, 2022, Aktea Hotel, Lipari, Italy https://www.neurosummerschool.org A first edition of the Sano Summer School dedicated to bridging global neuroscience world. 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 * Karl Friston * Alain Chedotal * Danielle Bassett * Luiz Pessoa * Bozena Kaminska * Randy Mcintosh * Walter Riviera * Marcin Wierzbinski * Mara Cercignani * Martijn van den Heuvel * Andras Jakab Organizing committee * Alessandro Crimi, Brian&More lab of Sano Science (Krakow, Poland) * Spyridon Bakas, Pereleman School of Medicine of University of Pennsylvania (Philadelphia, USA) Except further COVID-19 restrictions, with the idyllic landscape of the Aeolian islands, 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. Due to Covid restrictions we will limit to 70 participants, with no particular pre-selection (First-Registered-First-Served)See you in Lipari. Joan Falco-Roget [cid:004dfbe6-288d-47f0-938c-0471531cb430] Centre for Computational Personalised Medicine International Research Foundation Czarnowiejska 36, building C5 30-054 Kraków Poland Phone number: +48 880 107 623 +34 610 068 599 j.roget(a)sano.science<mailto:n.surname@sano.science> https://sano.science<http://www.sano.science/>

1 0

IVIM DIPY Query
by Sasha Hakhu April 26, 2022

April 26, 2022

Hello, I have successfully been able to run the code given for the IVIM model on the dipy page: https://dipy.org/documentation/1.1.0./examples_built/reconst_ivim/ However, my question is regarding the outputs- perfusion, diffusion maps etc. I don't want them being outputed as '.png' files. Instead, I need them to give me actual maps like .nii files. Please advise me on this and let me know if there's an alternative way of launching this model such that it results in analysis-worthy maps. Looking forward to your response. Thank you.

1 0

Open Meetings - starts in 15min - Diffusion MRI vs PLI: challenges and possibilities for ultra high resolution tractography
by Serge K. April 21, 2022

April 21, 2022

Hello all, it starts in 15 minutes! (1 pm Eastern Time (7pm CET / 10am PT)). Just a friendly reminder concerning the talk "Diffusion MRI vs PLI: challenges and possibilities for ultra-high-resolution tractography" by Dr. Rachel Barrett streaming from King's College London. Duration: 30-45min Question: 15min The zoom link for this talk is https://iu.zoom.us/j/84926066336 See you all online. On Behalf of the DIPY Team, *Serge Koudoro* Software Developer Intelligent Systems Engineering Garyfallidis Research Group <https://grg.luddy.indiana.edu/> School of Informatics, Computing, and Engineering Luddy Hall 700 N Woodlawn Ave, 4056 Bloomington, IN 47408 skoudoro(a)iu.edu <skoudoro(a)indiana.edu>

1 0

Open Meetings - Diffusion MRI vs PLI: challenges and possibilities for ultra high resolution tractography
by Koudoro, Serge April 20, 2022

April 20, 2022

Hello all, Tomorrow (Thursday, April 21rst), at 1 pm Eastern Time (7pm CET / 10am PT), we will be hearing from Dr. Rachel Barrett streaming from King's College London. The title of this talk is "Diffusion MRI vs PLI: challenges and possibilities for ultra-high-resolution tractography". You can find more information about our speaker here: https://kclpure.kcl.ac.uk/portal/rachel.barrett.html. The zoom link for this talk is https://iu.zoom.us/j/84926066336 See you all online. On Behalf of the DIPY Team, Serge Koudoro Software Developer Intelligent Systems Engineering Garyfallidis Research Group<https://grg.luddy.indiana.edu/> School of Informatics, Computing, and Engineering Luddy Hall 700 N Woodlawn Ave, 4056 Bloomington, IN 47408 skoudoro(a)iu.edu<mailto:skoudoro@indiana.edu>

1 0

[Research Collaborations] Office hours - Starting April 14 2022 1pm EDT
by Eleftherios Garyfallidis April 6, 2022

April 6, 2022

Hi All, We start next Thursday (April 14 2022) a new online session called Research Collaborations as an initiative to help researchers and clinical practitioners to accelerate the use of DIPY as a part of their work. We will be holding office hours every second week where different researchers from the DIPY team will help you analyze and recommend strategies to make the most of your data. Every second Thursday we will hold a default office hour from 1:00 PM to 2:00 PM EST on Thursday. We request the following to ensure that your requirements are met: 1. Enter your name, brief description and type of data in the google spreadsheet here: - DIPY_Office_Hours <https://docs.google.com/spreadsheets/d/1IVaixEbjKQqS2MrZHw1L2Gso8a0GannT19G…> 2. Tell us what DIPY functionality you intend to use (this can be tentative) -- this will enable us to get you in touch with the right DIPY expert on the topic. 3. If the time slot from 1 PM to 2 PM EST does not work for you, please enter the available time in the `Time Slot` column of the spreadsheet above. May your data live a new life! The zoom link is the same as the Open Meetings link. Shared in the link below. https://github.com/dipy/dipy/discussions/2398 On Behalf of the DIPY Team, Eleftherios

2 1

Announcing Neuromatch Academy courses for 2022!
by Melvin Selim April 5, 2022

April 5, 2022

Dear colleagues, We are excited to announce that Neuromatch Academy (NMA) is offering two courses this year from July 11th to July 29th 2022 which will run in parallel online. Applications for students and teaching assistants are now open until April 20th, 2022. NMA-Computational Neuroscience Flagship course covering contemporary computational neuroscience modeling and analysis techniques. Content: https://compneuro.neuromatch.io <https://compneuro.neuromatch.io/tutorials/intro.html> NMA-Deep Learning: In-depth advanced materials, ideal for graduate students and postdocs wishing to add computational techniques to their neuroscience research, or for individuals looking to dive into the Deep Learning world. Content: https://deeplearning.neuromatch.io <https://deeplearning.neuromatch.io/tutorials/intro.html> Application Form: https://portal.neuromatchacademy.org/ What is Neuromatch Academy? Neuromatch Academy (NMA) launched in 2020 as a response to the COVID-19 pandemic. Our aim is to provide globally-accessible, high-quality, TA-supported training in computational techniques related to neuroscience. In 2020 and 2021, NMA designed and ran a fully online 3-week Computational Neuroscience and a Deep Learning course for over 3000 students with more than 350 teaching assistants (TAs) working in virtual inverted (or flipped) classrooms and on small group projects. Fourteen languages, active community management, and low cost allowed for an unprecedented level of inclusivity and universal accessibility. What’s in a course? Our courses are intensive 3-week programs involving hands-on tutorials developed by experts in the field. Accepted students are placed into TA-led pods (groups) using the Neuromatch algorithm, which matches students with common interests who are in the same timezone and their preferred language for instruction. Students also receive personalized support as they work through hands-on tutorials and collaborate on course projects. [Please note that course participation requires active attendance and attention of the students for 3 weeks.] What does it cost? Neuromatch Academy’s mission is to make education affordable to everybody, no matter their financial background. We do this by pricing our courses significantly lower than other summer schools, adjusting for national economic factors, and allowing students to pay what they can when those adjustments are insufficient. Please see the website (https://academy.neuromatch.io/) for additional information, and volunteer opportunities! Warm Regards, Neuromatch Academy team Stay in touch with us via these platforms: Website: https://academy.neuromatch.io/ LinkedIn: https://www.linkedin.com/company/neuromatch-academy Instagram: https://www.instagram.com/neuromatch/ Facebook: https://www.facebook.com/NeuromatchAcademy Reddit: https://www.reddit.com/r/neuromatch/ -- Melvin Selim Atay [he/him/his] *Co-CDO of NMA 2022* PhD Candidate of Neuroscience and Neurotechnology Middle East Technical University https://mselimata.github.io

1 0