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neuroHarmonize
Harmonization tools for multi-site neuroimaging analysis. Implemented as a python package. Harmonization of MRI, sMRI, dMRI, fMRI variables with support for NIFTI images. Complements the work in Neuroimage by Pomponio et al. (2019).
https://pypi.org/project/neuroHarmonize/
MIT License
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Rounding after applyModelNIFTIs
#51
zyeapp
opened
3 weeks ago
1
Error in harmonizationApply due to site differences between training and testing data
#50
Yuvi-416
closed
3 weeks ago
3
NIFTI output after harmonization
#49
rahulharikumarr
closed
1 month ago
6
can size of train and test set differ?
#48
hannahhacker
closed
2 months ago
4
KeyError: 'grand_mean'
#47
pesojka
closed
2 months ago
6
How to save harmonization model?
#46
angelw55
closed
2 months ago
1
ModuleNotFoundError for version 2.4.1
#45
bradenyang
closed
2 months ago
4
Adding ref_batch parameter from ahzhu's implementation
#44
rpomponio
closed
3 months ago
1
fixing issue #35 to allow multiple smooth terms
#43
rpomponio
closed
4 months ago
0
Document "orig_model" parameter in harmonizationLearn
#42
olfMombach
opened
4 months ago
0
Dev issue 04
#41
rpomponio
closed
5 months ago
0
Output nifti preview after harmonizing
#40
hajerkr
closed
6 months ago
2
Singular matrix harmonizationLearn
#39
hajerkr
closed
6 months ago
4
Bug in grand mean calculation of one-dimensional data
#38
friedrichkrohn
closed
6 months ago
3
Cropped images
#37
SPChytas
closed
6 months ago
1
Providing paths to nifti images, but mask stage fails
#36
athenahowell
closed
6 months ago
2
More than one variable in smooth_terms
#35
mblesac
closed
4 months ago
2
How many subjects per scanner are required?
#34
Melissa1909
closed
6 months ago
1
longitudinal data
#33
meganhuibregtse
closed
6 months ago
1
(issue sent as email instead)
#32
smeisler
closed
1 year ago
0
The function adjust_data_final() in neuroCombat.py is modifying the input arg s_data
#31
gurayerus
closed
6 months ago
1
Pretrained models
#30
wizofe
closed
6 months ago
1
Add capability to handle categorical covariates
#29
melhemr
opened
1 year ago
1
Create deep copy of input model to avoid overwriting input
#28
melhemr
closed
1 year ago
2
Cleanup code + minor bug fixes
#27
fraimondo
opened
1 year ago
1
Update n batch
#26
AbdulkadirA
closed
2 years ago
1
Append B_hat parameter for out-of-sample sites
#25
melhemr
closed
2 years ago
0
Fix out of sample design matrix
#24
AbdulkadirA
closed
2 years ago
0
Working with high-resolution NIFTI Images
#23
WY-SHI
closed
6 months ago
1
Updated docs with new version number
#22
rpomponio
closed
2 years ago
0
Add optional argument "seed"
#21
AbdulkadirA
closed
2 years ago
0
Out of Sample Harmonization using COMBAT in harmonizationLearn
#20
melhemr
closed
2 years ago
0
Results not entirely deterministic
#19
rpomponio
closed
2 years ago
0
Add ref_batch parameter to neuroHarmonize to use SITE/scanner as refe…
#18
melhemr
opened
2 years ago
1
Scaling issue
#17
yuhancui
closed
2 years ago
2
Including Variable of Interest in Covariate Matrix?
#16
Saqibm128
closed
2 years ago
6
Would it make sense to include neighboring voxels when harmonizing a nifti image?
#15
Saqibm128
closed
2 years ago
2
Update README.rst
#14
vnckppl
closed
2 years ago
0
Modified code for harmonization on subjects (nifti) from new site
#13
yuhancui
closed
2 years ago
2
keep output nifti orientation as input
#12
yuhancui
closed
3 years ago
1
Correct docstring for output s_data
#11
AbdulkadirA
closed
3 years ago
1
Correcting for site as well as the effect of covariates on NIfTI images
#10
parekhpravesh
closed
2 years ago
6
Update scripts to account for new SITES
#9
melhemr
closed
3 years ago
5
Add details about the output to the docstring
#8
AbdulkadirA
closed
3 years ago
0
Transpose confound-corrected data matrix before returning it
#7
AbdulkadirA
closed
3 years ago
0
Generate Spatial Maps for NIFTI harmonization
#6
rpomponio
opened
4 years ago
0
Ability to specify reference site
#5
rpomponio
closed
3 months ago
0
Error when harmonizing only one measure
#4
rpomponio
closed
5 months ago
0
"aprior not defined"
#3
rpomponio
closed
4 years ago
0
Harmonization Fails with One Feature
#2
rpomponio
closed
4 years ago
0
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