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AllenInstitute
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ophys_etl_pipelines
Pipelines and modules for processing optical physiology data
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PSB-58 Adds nway cell matching step
#587
aamster
closed
1 year ago
0
PSB-96 Add `is_cell` flag
#586
aamster
closed
1 year ago
0
pull deepinterpolation from main
#585
mikejhuang
closed
1 year ago
1
ticket/PSB-120: Add neuropil correction and dff calculation.
#584
morriscb
closed
1 year ago
0
PSB-105 Remove circular dependency between cell classifier training and ophys processing
#583
aamster
closed
1 year ago
0
psb-116 Calculate `is_in_motion_border` flag in segmentation, remove is_small_size
#582
aamster
closed
1 year ago
1
PSB-118 Decrosstalk sensor + pass exclusion labels to demix
#581
aamster
closed
1 year ago
0
try using include statement in coveragerc_file to fix codecov report
#580
danielsf
closed
1 year ago
1
PSB-85 Adds decrosstalk trigger and PipelineModule
#579
aamster
closed
1 year ago
2
ticket/PSB-99: Add demix module to new airflow pipeline.
#578
morriscb
closed
1 year ago
1
Bugfix get roi classifier
#577
aamster
closed
1 year ago
0
Ticket/PSB-83: Handle downstream logic with the deprecation of most `exclusion_labels` classifications and replaced by the ROI classifier
#576
morriscb
closed
1 year ago
0
Fix np.int deprecation
#575
mikejhuang
closed
1 year ago
2
DFF edge case fix
#574
mikejhuang
closed
1 year ago
1
add gpt commit summarizer
#573
mikejhuang
closed
1 year ago
3
psb-50 Ophys processing trigger
#572
aamster
closed
1 year ago
1
Fix broken dags
#571
aamster
closed
1 year ago
0
Workflow v2 merged
#570
morriscb
closed
1 year ago
0
Workflow v2
#569
morriscb
opened
1 year ago
0
Add trace extraction to workflow
#568
mikejhuang
closed
1 year ago
7
PSB-69 Use Slurm REST api instead of command line
#567
aamster
closed
1 year ago
0
negative insert coordinates for mapping surfaces to fullfield
#566
nataliaorlova
opened
1 year ago
0
Danielsf/make/ff/optional
#565
danielsf
closed
1 year ago
1
psb-66 psb-67 Inputs outputs in sync
#564
aamster
closed
1 year ago
1
Psb-37 add roi classifier to workflow
#563
aamster
closed
1 year ago
0
Add neuropil masks output to trace_extraction module
#562
mikejhuang
closed
1 year ago
8
Fix dff calculation when passed a trace with all 'nan' values
#561
mikejhuang
closed
1 year ago
1
Add Demix module
#560
mikejhuang
closed
1 year ago
2
Ticket/PSB-61: Expose `nonrigid` setting more seamlessly in ophys_etl `suite2p_registration` module
#559
morriscb
closed
1 year ago
1
Add neuropil_correction module and update unconverged r vals
#558
mikejhuang
closed
1 year ago
1
PSB-68 add segmentation to workflow
#557
aamster
closed
1 year ago
1
Find/fullfield/tiff
#556
danielsf
closed
1 year ago
2
Add initial workflow infrastructure
#555
aamster
closed
1 year ago
0
Logger/warning/deprecation
#554
danielsf
closed
1 year ago
1
Support for tensorflow using gpu through docker, and other improvements
#553
aamster
closed
1 year ago
0
Various DFF Fixes
#552
mikejhuang
closed
1 year ago
1
Pin/networkx
#551
danielsf
closed
1 year ago
0
Adds deepinterpolation CLIs
#550
aamster
closed
1 year ago
1
Danielsf/add/platform/json/path
#549
danielsf
closed
1 year ago
3
Explore optimizations to deepinterpolation inference
#548
mikejhuang
closed
1 year ago
5
Merge DeepInterpolation main onto Scott's branch
#547
morriscb
closed
1 year ago
1
Develop LIMS strategies and changes to implement the SSF pipeline
#546
morriscb
opened
1 year ago
0
Look over Scott's changes and determine why/what was needed.
#545
morriscb
closed
1 year ago
2
add placeholder for platform_json_path
#544
danielsf
closed
1 year ago
2
Create stop gap LIMS2 queues for denoising training/inference + classifier inference
#543
morriscb
opened
1 year ago
0
Create denoiser ophys_etl_pipelines modules
#542
morriscb
opened
1 year ago
1
make sure that the chunk sizes in the HDF5 videos aren't too large
#541
danielsf
closed
1 year ago
0
Ticket/522/for/pr
#540
danielsf
closed
1 year ago
2
Demixing process not saved
#539
jkim0731
closed
11 months ago
1
neuropil correction coefficient larger than 1
#538
jkim0731
closed
11 months ago
5
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