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@侯元昊
@侯元昊 3 ай бұрын
hi Can a Tmax color map be registered to DWI?
@interwebzful
@interwebzful 9 ай бұрын
important work, thanks
@alanbince9365
@alanbince9365 9 ай бұрын
Fantastic work !
@abdullahalhashem986
@abdullahalhashem986 Жыл бұрын
Nice, cannot wait for it to become the norm in clinical settings.
@interwebzful
@interwebzful Жыл бұрын
the "ugly slide" was exciting
@Stinger-rq4gy
@Stinger-rq4gy Жыл бұрын
What if we combine Anthony Wagners algorithm with AI decoding images and we use the NexGen 7T, combined with EEG? How well can we deduce what memory is associated with which voxels/groups of neurons then after we combine all these things?
@Stinger-rq4gy
@Stinger-rq4gy Жыл бұрын
❤❤❤❤great
@Stinger-rq4gy
@Stinger-rq4gy Жыл бұрын
What if we combine nexgen 7T with Anthony Wagners algorithm that can tell the difference between memories and new experiences 75% to 95% of the time? Can we deduce what groups of neurons hold which specific memory?
@Stinger-rq4gy
@Stinger-rq4gy Жыл бұрын
What if we combine this 7T MRI with Anthony Wagners technique algoritm that determine memories from new experiences 75% to 95% accuracy? And possibly combine with the best EEG?
@BUY_YOUTUBE_VIEWS_d0dd14
@BUY_YOUTUBE_VIEWS_d0dd14 Жыл бұрын
I've never hit the 'subscribe' button so fast!
@seanmarrett5437
@seanmarrett5437 Жыл бұрын
Hurray for Kenny !! Fabulous work.
@interwebzful
@interwebzful Жыл бұрын
Kenny! My heart swelled to hear his voice. Love him. AWESOME WORK
@fun2scan
@fun2scan Жыл бұрын
Thank you Sam! Kudos to Renzo for making this project works.
@interwebzful
@interwebzful Жыл бұрын
great talk! btw SurfLayers in AFNI can also create evenly-spaced surface meshes between wm and pial
@interwebzful
@interwebzful Жыл бұрын
pta ftw!
@interwebzful
@interwebzful Жыл бұрын
thanks Renzo for your refreshing honesty
@amirhosseindaraie5622
@amirhosseindaraie5622 Жыл бұрын
I laughed at the Publication Conflict slide! Great job Renzo!
@alcyonecrucis
@alcyonecrucis Жыл бұрын
I dig it Prof!
@ofgulban
@ofgulban Жыл бұрын
Here is how I segmented the mentioned dataset (first time seeing) a day after this meeting: kzbin.info/www/bejne/qnrYfHppp9mJoZY
@interwebzful
@interwebzful Жыл бұрын
re: that somewhat silly motion correction debate, Eli seems like a user who's frustrated that things don't "just work" while Paul and Omar more deeply understand what the algorithms are doing and the necessary tweaks that highly variable laminar datasets require. i shared Sean's frustration at the end.
@timozomerman
@timozomerman 2 жыл бұрын
Really nice talk!
@panagiotisiliopoulos3725
@panagiotisiliopoulos3725 2 жыл бұрын
Thank you for this video. I am wondering why in 7T I often see people co-registering from the T1 to the EPI? and not the other way around as it's often done (which seems more intuitive ). I imagine this has to do with not changing the EPI image, but I am not sure here whether advantages are more than the cons; Can you please comment here please? :) Many thanks
@layerfmri
@layerfmri 2 жыл бұрын
Panagiotis. The reason, why high-resolution fMRI studies usually register the anatomy to EPI and not the other way around is to keep the functional data as unaffected as possible. every spatial alignment comes along with a spatial interpolation step, which ultimately blurs the signal. See this paper for more info (e.g. Fig. 1): dx.doi.org/10.1016/j.neuroimage.2017.04.053 This is usually not a bit issue in conventional fMRI, where the signal is blurred anyway.
@VladyslavKL
@VladyslavKL 3 жыл бұрын
🕊
@chenglin8148
@chenglin8148 3 жыл бұрын
That's really cool. When can we download this APP?
@seanmarrett5437
@seanmarrett5437 3 жыл бұрын
Wow. Moving fast. Superb!
@CookingwithRobinStone
@CookingwithRobinStone 3 жыл бұрын
Great talk! Thanks for sharing!
@hemahema3788
@hemahema3788 4 жыл бұрын
Hi Ants Experts, Many thanks for this useful tutorial. I wonder if you recommend any similar way for template generation step by step. Many Thanks in advance
@alicianorthall9583
@alicianorthall9583 4 жыл бұрын
Thanks! Do you know of a way to undo a change during manual registration? I am currently using this tool to manually register a T1 and a functional image and I have to restart if I make a mistake without noting the previous parameters.
@salvatoretorrisi2950
@salvatoretorrisi2950 4 жыл бұрын
great presentations! the AFNI tool is called 3danisosmooth and has been around for ~15 years
@ofgulban
@ofgulban 4 жыл бұрын
Thanks for your kind words :) . Indeed, AFNI has an implementation of Weickert 1998. I think I must have mentioned it at some point or maybe in the previous lecture. One difference is that I sometimes use custom equations to tweak the diffusion behavior to fit special needs (e.g. case mentioned around 40:47, now published work: elifesciences.org/articles/56963 ).
@salvatoretorrisi2950
@salvatoretorrisi2950 4 жыл бұрын
@@ofgulban Awesome, can't wait to read your paper! Yes you mentioned it in this lecture but didn't get the name quite right, and you didn't mention it in your paper or (from what i can see) your github either. It's all good, I just see time and time again AFNI tools getting looked over (partly their fault for not formally publishing everything they do).
@ofgulban
@ofgulban 4 жыл бұрын
Salvatore Torrisi yeah, I would have definitely preferred realizing that AFNI already had an easy to use implementation a few years ago, before implementing myself :). Not enough people knew about AFNI around me unfortunately at that time. Though it is not too bad of an exercise to implement something to fully understand it compared to only being a user. Just to clarify, I did not mention it in the paper since I refer directly to the origin, Weickert’s 1998 book, which is what I have studied to implement it from scratch while tweaking some parts in the way I see fit. Nevertheless I have updated my github page now to direct some well-deserved attention to 3danisosmooth of AFNI: github.com/ofgulban/segmentator/wiki/Nonlinear-anisotropic-smoothing . Thanks for taking the time highlight this.
@interwebzful
@interwebzful 4 жыл бұрын
@@ofgulban Very kind of you to make that change to the page. Yours is much more than an "exercise" and rather a truly valuable contribution to the field! Thank you for your very high quality work.
@avinashkalyani2892
@avinashkalyani2892 4 жыл бұрын
This is super cool! Can't wait to try it out myself 😊
@djglennunez
@djglennunez 4 жыл бұрын
I liked the celebrity guest appearance at the end!
@aykhojandi
@aykhojandi 4 жыл бұрын
Amazingly clear, informative, and FUN presentation, Renzo! Very excited to see you blaze the laminar-res connectivity trail--those data must be comparatively clean from not taking a large hit due to smoothing, etc. Curious if you noticed specific artefacts from acceleration in the second phase-encoding direction? Or if HRF-matching was just more effective and that's why you went with it Thanks for the shoutout!
@layerfmri
@layerfmri 4 жыл бұрын
Thanks Arman, Thanks for this excellent question. Yes, the TR and the slow HRF are something that we can improve in the future. I think one of many reasons, why the data looked best for longer TRs was that the reconstruction of GRAPPA data in two Phase-encoding directions. And how it deals with phase errors. E.g. here we see that it the specifics of the Recon algorithm matter in this protocol. See example artifacts here: twitter.com/layerfMRI/status/1243519834194882560/photo/1 It is without question, that we will miss the neurally driven fluctuations at high temporal frequencies. But after all, the HRF is slow. It cannot capture the interesting neural fluctuations in the range of alpha, betha, gamma bands. And the fMRI sensitivity to measure sub-second changes is orders of magnitude smaller than the magnitude of slower changes (Laura Lewis studies). So it remains to be seen how big of a hit in tSNR I should find acceptable, just so that I don't miss the HRF-attenuated fast fluctuations, that are very hard to see to begin with.
@tinAbraham_Indy
@tinAbraham_Indy 4 жыл бұрын
Thank you very much indeed. This video helped me very much. Could you please tell me how can I run that script? I mean I do not know by which software I can run Registration.sh
@layerfmri
@layerfmri 4 жыл бұрын
Hi tayebeh, Sure, the Registration.sh is part of ANTS github.com/ANTsX/ANTs. I tried to explain how to use it here: layerfmri.com/2019/02/11/high-quality-registration/ I hope that helps.
@tinAbraham_Indy
@tinAbraham_Indy 4 жыл бұрын
Thanks again. I want to register two structural T1-W images. I have used your script and performed exactly like what you have explained in this tutorial video. but I got an error: transform file does not exist: registered1_0GenericAffine.mat Could you please help me to fix this error?
@salvatoretorrisi2950
@salvatoretorrisi2950 5 жыл бұрын
wonderful
@salvatoretorrisi2950
@salvatoretorrisi2950 5 жыл бұрын
powerful work
@ali.aghaeifar
@ali.aghaeifar 5 жыл бұрын
Do you also have the pTx and engineering talks?
@layerfmri
@layerfmri 5 жыл бұрын
Sorry, I don't. Maybe one of their organisers (Pierre-Francois Van de Moortele, Gregor Adriany, Xiaoping Wu, and Yigitcan Eryaman) knows, if they recorded the sessions?
@seanmarrett5437
@seanmarrett5437 5 жыл бұрын
Did Artie Fischl move to Maastricht from DC ? Any relation to Bruce ?
@layerfmri
@layerfmri 5 жыл бұрын
Yes, Artie moved ;-) He is a son (creation) of Jacco, no? -> Cryptography has Alice and Bob -> The forensics department has Jane/John Doe -> Computer science has Foo and Bar -> CPR has rescue Annie I think MRI should have Artie Fischl ;-) much better than "test" and all the other pseudo names
@sophiayacoub9801
@sophiayacoub9801 5 жыл бұрын
Your cool
@sophiayacoub9801
@sophiayacoub9801 4 жыл бұрын
Your cool
@seanmarrett5437
@seanmarrett5437 5 жыл бұрын
Fantastic!
@layerfmri
@layerfmri 5 жыл бұрын
0:00 Introduction 0:57 Introduction to EPI 2:32 Data to download 4:22 Optimized localizer 10:23 Access to hidden recon parameters in IceConfig 12:48 Changing IcePat parameters 16:32 GRAPPA regularization strengths 20:35 GRAPPA Kernel size 28:03 Bandwidth 26:57 GRAPPA calibration data scheme 41:56 B0-related artifacts 47:03 Retrospective reconstruction 51:56 Phase correction algorithm 57:11 Magnitude phase and real part 58:18 Coi uncombined images 59:48 Acknowledgements
@interwebzful
@interwebzful 6 жыл бұрын
there a few "futures" of human neuroscience and this is definitely one of them
@limtia
@limtia 6 жыл бұрын
Thanks for a very nice video
@dareanddive1534
@dareanddive1534 6 жыл бұрын
Good job your awesome
@dareanddive1534
@dareanddive1534 6 жыл бұрын
You are awesome!