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neurodatascience
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nipoppy
Lightweight framework for neuroimaging-clinical data organization/processing
https://nipoppy.readthedocs.io/en/latest/
MIT License
10
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[BUG] Doughnut file should not be updated for all BIDS steps
#272
michellewang
opened
1 week ago
0
[BUG] Doughnut file should not be updated if `--simulate` is used
#271
michellewang
opened
1 week ago
0
[ENH] Add dicm2nii
#270
michellewang
opened
1 week ago
1
Double-check processing pipeline descriptors
#269
michellewang
opened
1 week ago
0
[BUG] Doughnut file path not up to date
#268
michellewang
opened
1 week ago
0
[ENH] Add descriptors and sample invocations for BIDScoin
#267
michellewang
opened
2 weeks ago
1
[ENH] add QSIPrep
#266
michellewang
opened
2 weeks ago
2
[ENH] Add default tracker config files for fMRIPrep and FreeSurfer, and update default invocation files
#265
michellewang
closed
2 weeks ago
6
Implement RABIES (DRAFT)
#264
david-roper
opened
2 weeks ago
0
[ENH] Rename tabular file columns to `visit_id` and `session_id`
#263
michellewang
closed
2 weeks ago
1
Add a "walkthrough" page that goes from raw DICOMs from a dummy dataset to IDPs/dashboard
#262
michellewang
opened
3 weeks ago
0
[ENH] Add success/summary message at the end of each workflow
#261
michellewang
opened
3 weeks ago
1
[FIX] Write updated doughnut file to disk at the end of `DicomReorgWorkflow` and `BidsConversionWorkflow`
#260
michellewang
closed
2 weeks ago
1
[ENH] Make sure workflows do not run again for participant/sessions that already have expected output
#259
michellewang
closed
3 weeks ago
2
Have one tracker config file per pipeline step (instead of one per pipeline)?
#258
michellewang
opened
3 weeks ago
0
Allow pipelines that do group processing
#257
michellewang
opened
3 weeks ago
0
Create high-level description of nipoppy guiding principles and targetted user personas
#256
nikhil153
opened
3 weeks ago
1
Print summary message for all workflows that have `run_single`
#255
michellewang
opened
3 weeks ago
0
[BUG] Updated doughnut is not written to disk in `DicomReorgWorkflow` and `BidsConversionWorkflow`
#254
michellewang
closed
2 weeks ago
0
Make PyBIDS database generation optional in `PipelineRunner`
#253
michellewang
opened
3 weeks ago
0
Add more default tracker config files
#252
michellewang
closed
2 weeks ago
0
[BUG] Specifying `DICOM_DIR_MAP_FILE` causes `ValidationError`
#251
michellewang
closed
3 weeks ago
1
trying install instructions
#250
dnkennedy
opened
1 month ago
17
Add option to have `nipoppy run` pull the pipeline's container if it is not found
#249
michellewang
opened
1 month ago
0
Add support for QSIPrep
#248
michellewang
opened
1 month ago
0
Move from CSV files to TSV
#247
michellewang
opened
1 month ago
0
Make sure workflows don't run for participant/sessions that already have expected output
#246
michellewang
closed
3 weeks ago
0
Rename manifest columns and drop BIDS prefixes
#245
michellewang
closed
2 weeks ago
0
Improve Python API autodocs
#244
michellewang
opened
1 month ago
0
[DOC] Add user guide
#243
michellewang
opened
1 month ago
1
Rename doughnut columns
#242
michellewang
closed
2 weeks ago
0
Rename `<DATASET_ROOT>/scratch/raw_dicom` -> `<DATASET_ROOT>/scratch/raw_imaging`
#241
michellewang
closed
2 weeks ago
0
Add support for BIDSCOIN
#240
michellewang
opened
1 month ago
0
Refactor container-related components of Boutiques descriptors
#239
michellewang
opened
1 month ago
3
[ENH] Update global config specification
#238
michellewang
closed
3 weeks ago
2
[FIX] Make sure Python >=3.9 is supported
#237
michellewang
closed
1 month ago
1
Self import from typing does not work with Python 3.10
#236
david-roper
closed
1 month ago
2
Add a BIDS tracker
#235
michellewang
opened
1 month ago
0
Make `nipoppy init` create an empty code directory too
#234
michellewang
opened
1 month ago
2
Add command to import a BIDS dataset into a Nipoppy dataset
#233
michellewang
opened
1 month ago
0
Edits to trackers, bids conversion
#232
danyluik
opened
1 month ago
1
Migrate existing extractors to CLI
#231
michellewang
opened
1 month ago
0
Add option to tar directories/files after running a pipeline
#230
michellewang
opened
1 month ago
0
[ENH] Add DICOM header checking and `DicomDirMap` to `DicomReorgWorkflow`
#229
michellewang
closed
1 month ago
1
[DOC] Add user guide page for each workflow/CLI command
#228
michellewang
opened
1 month ago
0
Implement parallel processing for DICOM reorg/BIDS conversion/other workflows
#227
michellewang
opened
1 month ago
0
Add phases/stages to tracker workflow
#226
michellewang
opened
1 month ago
1
Update DICOM reorg workflow
#225
michellewang
closed
1 month ago
0
Decide on/create a logo
#224
michellewang
opened
1 month ago
0
Discuss/finalize global config spec
#223
michellewang
closed
3 weeks ago
0
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