pnlbwh / dMRIharmonization

Multi-site dMRI harmonization

pnlbwh/dMRIharmonization Issues

image of mean FA is not appropriate
Updated a month ago8
Version/Attribute Issue at Template Creation (n is not an attribute of QballModel)
Updated a month ago6
Denoising Step
Updated 3 months ago
nibabel library: get_data() is deprecated, and we should start using get_fdata() instead.
Updated 4 months ago
Different data for template creation and harmonization, how to find the goodness of harmonization by observing the number after harmonization
Closed 7 months ago4
Conflicting starting meanFA values for each site depending on the direction of the harmonization.
Closed 7 months ago16
Compressed file ended before the end-of-stream marker was reached
Closed 7 months ago3
Pipeline_test.sh values not matching expected
Closed 7 months ago1
IIT atlas file links in README need update or causing ANTS and ITK ImageReader error
Closed 2 years ago
Segmentation fault in lantsMultivariateTemplateConstruction2_fixed_random_seed.sh
Closed 2 years ago
Time estimate for template
Closed 2 years ago1
Path with dots breaks `antsMultivariateTemplateConstruction2.sh`
Closed 2 years ago30
N_shm=-1 is not overwritten in config
Updated 2 years ago
Applying the harmonization to other diffusion weighted images
Closed 3 years ago8
Remove outdated comments
Closed 3 years ago
Skipping unring step
Closed 3 years ago2
[Redundancy] Do not redo registration for harmonized data
Updated 4 years ago
tests run N_shm key error
Closed 4 years ago5
Missing Scale_L4
Closed 4 years ago7
b-values near 0 being remapped to `bNew`
Closed 4 years ago2
Harmonizing patients to healthy controls
Closed 4 years ago1
processing data from reference site, which were not included in the template creation step
Updated 4 years ago2
Use mkstemp to generate a named temporary file
Updated 4 years ago4
[redundancy] compute masked volume inside DIPY block
Closed 4 years ago1
harmonization of 1.5T and 3T scanners
Closed 4 years ago
Harmonization for pediatric/neonatal datasets
Closed 4 years ago1
TODO: spherical harmonics model needs to be fitted on REF site w/o any scaling
Closed 4 years ago4
data harmonization in TBI patients
Closed 4 years ago1
Challenge the program with --resample --debug --force
Closed 4 years ago1
Replacing SPM, FSL, REISERT tools with standard Python packages
Updated 4 years ago1
Expected meanFAstats.txt from the pipeline_test.sh
Closed 5 years ago4
TODO: structure the output statistics file
Closed 4 years ago6
Preserve singularity of qform() and sform() individually
Closed 4 years ago1
setting smooth parameter for SH fitting to a smaller value
Closed 4 years ago
Can --ref_name and --tar_name be not mandatory?
Closed 4 years ago1
Replace `aramislab` by pnlbwh`
Closed 4 years ago1
Data path parcellation
Closed 5 years ago8
os module is not imported in the `test_util.py` nor `fa_skeleton_test.py`
Closed 5 years ago1
path in a line 194 in README.md
Closed 5 years ago2
Optimize spm_bspline execution to avert memory error
Closed 5 years ago1
Provide --ncpu for multivariate template construction and the rest differently
Closed 5 years ago1
Resampled mask in Python is zero on the last slice along Z axis
Closed 5 years ago8
Resume stopped template creation
Closed 5 years ago7
Use soft thresholding to identify b0
Closed 5 years ago2
tmp dir
Closed 5 years ago9
pipeline_test.sh
Closed 5 years ago3
print all FA statistics, mean FA, std FA
Closed 5 years ago2
Add imagelist generation instruction in README.md
Closed 5 years ago2
MATLAB Runtime Compiler
Closed 5 years ago1
BUG: warped masks should also be saved in template directory
Closed 5 years ago1