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courtois-neuromod
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anat-processing
Pipeline to process anatomical data, including microstructure metrics from DWI and MT data
MIT License
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Add detailed instructions/resources on how to reproduce the diffusion database (genu/body/splenium) data for r20230110
#40
mathieuboudreau
opened
1 year ago
0
[WIP] update dwi analysis
#39
arnaudbore
closed
1 year ago
0
Missing derivatives data: MTsat
#38
mathieuboudreau
opened
1 year ago
0
QC: SC T1 qMRI
#37
mathieuboudreau
closed
1 year ago
2
QC: T2-star
#36
mathieuboudreau
opened
1 year ago
5
Improve brain segmentations and output ANTS affine transformation file
#35
mathieuboudreau
closed
1 year ago
0
Brain pipeline update - data syntax and config for podman server
#34
mathieuboudreau
closed
1 year ago
0
Updates for changes in BIDS data filenames
#33
mathieuboudreau
closed
1 year ago
0
User access: grant write privileges to user mathieuboudreau
#32
mathieuboudreau
closed
1 year ago
2
Fixes file names based on older BIDS convention
#31
jcohenadad
closed
1 year ago
1
Spinal cord release r20220623 missing T1, MTsat and MTR data.
#30
mathieuboudreau
closed
1 year ago
6
Image artifacts: T2w
#29
jcohenadad
opened
2 years ago
1
Image artifacts: T1w
#28
jcohenadad
opened
2 years ago
1
Image artifacts: DWI
#27
jcohenadad
opened
2 years ago
3
Nextflow pipeline output remains in un-human readable folders after run
#26
mathieuboudreau
closed
1 year ago
3
Nextflow pipeline stopping after MP2RAGE processing
#25
mathieuboudreau
closed
1 year ago
2
Add DSL2 version of the brain processing pipeline
#24
agahkarakuzu
closed
2 years ago
0
Rm old workflow
#23
agahkarakuzu
closed
2 years ago
0
Upload results for brain processing
#22
jcohenadad
opened
2 years ago
5
Added spinal cord analysis pipeline (sct_run_batch)
#20
jcohenadad
closed
3 years ago
2
Add gradient non-linearity distortion correction on T1w and T2w scans
#19
jcohenadad
opened
3 years ago
3
Continue processing even if one process is crashing
#18
jcohenadad
closed
2 years ago
3
ValueError: min() arg is an empty sequence on cord segmentation
#17
jcohenadad
opened
3 years ago
0
Missing output
#16
jcohenadad
closed
3 years ago
2
What analysis pipeline to use with the Neuromod project?
#15
jcohenadad
opened
3 years ago
4
Issues with log.info nextflow formatting
#14
jcohenadad
closed
2 years ago
1
Added spinal cord analysis pipeline (Nextflow)
#13
jcohenadad
opened
3 years ago
6
What is the procedure to create a container for another 3rd party software
#12
jcohenadad
closed
1 year ago
2
DSL2 API changes & modules
#11
agahkarakuzu
closed
3 years ago
3
Adapt old mt_sat workflow to new data organization
#10
agahkarakuzu
closed
3 years ago
8
The nextflow pipeline creates data in the source directory
#9
jcohenadad
closed
2 years ago
3
Where is the output?
#8
jcohenadad
closed
3 years ago
6
Update nextflow pipeline to add processing
#7
jcohenadad
closed
2 years ago
1
Detail processing for MP2RAGE data
#6
jcohenadad
closed
2 years ago
1
Document Nextflow install
#5
jcohenadad
closed
3 years ago
0
Implement manual correction strategy
#4
jcohenadad
opened
3 years ago
2
Process remaining time points for cneuromod article
#2
jcohenadad
closed
1 year ago
1
Document the usage of the pipeline from scratch
#1
jcohenadad
opened
3 years ago
1