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dipy/dipy

Diffusion MR Imaging in Python

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May 29 16:14

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Update SH basis documentation Merge pull request #2176 from C… (compare)
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May 27 22:26

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May 27 20:20

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May 27 18:23

codecov[bot] commented #2179

Eleftherios Garyfallidis

@Garyfallidis

:fire: :fire: :fire: :fire: :fire: :fire: :fire:

:roller_coaster: :roller_coaster: :roller_coaster:

BramshQamar

@BramshQamar

:fireworks:

Eleftherios Garyfallidis

@Garyfallidis

:rocket: :rocket: :rocket: :rocket: :rocket: :rocket:

Shreyas Fadnavis

@ShreyasFadnavis

👌🏻👌🏻👌🏻👌🏻👌🏻🔥

Gabriel Girard

@gabknight

:thumbsup: :thumbsup:

Rafael Neto Henriques

@RafaelNH

Congrats to all ! Well done! Amazing !

Romulus

@romainviard

Thx u !! in hurry to try it

Paolo Avesani

@Paolopost

http://bit.ly/congratulation2you

Really great achievement!

Eleftherios Garyfallidis

@Garyfallidis

:wine_glass:

Kirstie Whitaker

@KirstieJane

:scream_cat: :scream_cat: :scream_cat: Congratulations!

Eleftherios Garyfallidis

@Garyfallidis

Thank you!!! :smile:

Jean-Christophe Houde

@jchoude

Hey Elef, congrats on the release!

When I try to access dipy.org in Firefox, I get a certificate invalidity message. You might want to look into that @Garyfallidis @skoudoro

Eleftherios Garyfallidis

@Garyfallidis

Yes, should be resolved in a few days. We have applied for the SSL certificate.

Jean-Christophe Houde

@jchoude

:thumbsup:

Fang-Cheng Yeh

@FangChengYeh_twitter

Congratulations to the new DIPY and Website. It looks awesome!

Eleftherios Garyfallidis

@Garyfallidis

Thank you @FangChengYeh_twitter and all for your help all these years.

Fang-Cheng Yeh

@FangChengYeh_twitter

You are welcome. Wish I could help more if I knew how to code in python.

Eleftherios Garyfallidis

@Garyfallidis

Never late! :D

nis02002

@nis02002

Anyone please let me know how to load dataset from HCP with DIPY?

Eleftherios Garyfallidis

@Garyfallidis

Do you have the nifti images @nis02002 ? Can you try dipy_info?

Eleftherios Garyfallidis

@Garyfallidis

https://twitter.com/dipymri/status/1166839579292422146?s=20

Eleftherios Garyfallidis

@Garyfallidis

AlexBadea

@portokalh

I wonder if the dipy CSA implementation supports multiple b values. Many thanks!

Romulus

@romainviard

Hi all, could someone give me an hand ?

see that: import dipy
print(dipy.version) >>>> 1.0.0 It's ok but

import dipy.viz import window, actor >>>>Gives an error, I just wondering why ?
File "<ipython-input-61-930dc3d62dde>", line 6
import dipy.viz import window, actor
^
SyntaxError: invalid syntax

Eleftherios Garyfallidis

@Garyfallidis

@portokalh it will give reasonable result. Like an average ODF from the different shells. Make sure the shells are all spherical.

@romainviard from dipy.viz import window, actor

Romulus

@romainviard

@Garyfallidis Sorry I made an mistake when I wrote on gitter..."from dipy.viz import window, actor " didn't work on dipy1.0.0 (python 3) but works on dipy 0.14.0 (python 2.7), Do you confirm that it should work with the last version of dipy ? Thanks you

Eleftherios Garyfallidis

@Garyfallidis

Have you installed fury?

pip install fury

And yes it should work. I do confirm.

AlexBadea

@portokalh

thanks much @Garyfallidis !

Romulus

@romainviard

thanks @Garyfallidis you were right!!

Davis Bennett

@d-v-b

what would need to be done for registration in dipy to support masked images

Davis Bennett

@d-v-b

looks like adding properties to MutualInformationMetric

Romulus

@romainviard

Hi dipy's folks,
I'm using the great function dipy.stats.analysis.afq_profile…
And I 'm wondering two things :

Is it better to compute the profile on the full track/bundle (so multiple fibers) or on only one fiber (a cluster obtained using QuickBundles for example)?
If I want to do stats on different profiles (for example mean FA on the same tract for various subjects), how would you advice to correct statistics(multiple comparison, and espacially spacial correlation,) with Random Field Theory or another one ? In pratical with python and scipy ?
Thanks a lot in advance,

nis02002

@nis02002

Anyone know does DIPY can do diffusion compartment imaging study?

Eleftherios Garyfallidis

@Garyfallidis

Hi @romainviard !

nis02002

@nis02002

DCI (diffusion compartment imaing) is more advanced than DTI

Eleftherios Garyfallidis

@Garyfallidis

@romainviard let me introduce you to @BramshQamar that is working on extending our statistical analysis framework and she can explain all the details to you. In short, we have a strategy for you to start with and happy to collaborate in trying new ideas.

nis02002

@nis02002

Or any other tool could implement compartment study will be great, thanks a lot

Eleftherios Garyfallidis

@Garyfallidis

@nis02002 do you have DCI data?

nis02002

@nis02002

i only have diffusion image data

i wonder can I fit the data into diffusion compartment model

nis02002

@nis02002

How can we calcuate the diffusion tensor D using tersor model?

like Apparent diffusion coefficnet?