nimh-dsst/dsst-defacing-pipeline
Defacing algorithm to improve and evaluate accuracy for large datasets.
Python
Issues
- 0
Generate modality specific 3D renders
#25 opened by Arshitha - 0
- 2
-p flag not working
#38 opened by Arshitha - 2
Option to use all scans as primary for subject without a T1w instead of skipping over them
#8 opened by dmoracze - 0
Add --mode derivative,inplace option
#46 opened by yarikoptic - 1
Should exit with non-0 exit code in case of failing, and likely even upon initial fail to run AFNI / fsl tools
#45 opened by yarikoptic - 0
Should just skip a subject without anatomical
#44 opened by yarikoptic - 0
Should not look under non-bids folders, or in particular under folder names with leading period
#43 opened by yarikoptic - 0
Blows up with `KeyError: 'ses-02'` whenever that subject does not have T1w in any other session but one
#42 opened by yarikoptic - 2
fsleyes render not working
#40 opened by Arshitha - 1
Turn into Docker container for BIDS App
#24 opened by ericearl - 0
- 2
Add an anonymization flag
#33 opened by Arshitha - 1
Reduce environment size
#36 opened by dmoracze - 1
Add a flag to dsst_defacing_wf.py cli to start swarm jobs from within the script
#26 opened by Arshitha - 2
Add flag feature to automatically use all images as primary rather than doing the whole primary T1w dance and pony show
#10 opened by dmoracze - 1
replace NIH HPC module load commands
#15 opened by Arshitha - 2
parallel execution at session level
#20 opened by Arshitha - 1
Parallelize fsleyes render as well
#22 opened by ericearl - 1
Add progress bar while defacing is in progress
#19 opened by Arshitha - 1
Improve summary output information
#16 opened by Arshitha - 0
Replace FSL commands with AFNI equivalents
#18 opened by Arshitha - 0
- 1
Add more helpful output to terminal
#7 opened by dmoracze - 1
In README describe what the input dataset looks like (eg BIDS valid or, if not what?)
#5 opened by dmoracze - 2
Add example mapping file
#6 opened by dmoracze - 0
- 1