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AllenNeuralDynamics
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aind-ophys-utils
Repo for Ophys utils
MIT License
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New summary images, color videos, smarter downscaling
#52
j-friedrich
closed
2 months ago
1
fiber photometry data nwb packaging design
#51
hagikent
opened
7 months ago
1
adding robust signal/noise, skew and tests
#50
arielleleon
closed
4 months ago
8
Add episodic mean FOV to aind-ophys-utils
#49
arielleleon
opened
8 months ago
2
Add roi utils
#48
mattjdavis
opened
8 months ago
0
Signal processing utils and summary images
#47
j-friedrich
closed
8 months ago
0
pull functions from pipeline utils into each ophys_etl capsule
#46
arielleleon
opened
10 months ago
2
Feat motion border
#45
arielleleon
closed
10 months ago
0
Update README.md
#44
dyf
closed
11 months ago
0
Update README.md
#43
dyf
closed
11 months ago
0
clean up readme
#42
dyf
closed
11 months ago
0
publishing to pypi
#41
dyf
closed
11 months ago
0
enable publishing to pypi on merges to main
#40
dyf
closed
11 months ago
0
remove the test_example.py
#39
j-friedrich
closed
11 months ago
0
Code review utils package for ophys pipeline development
#38
arielleleon
opened
11 months ago
1
unit test utils package for ophys_etl pipeline
#37
arielleleon
opened
11 months ago
1
Video+array utils
#36
j-friedrich
closed
11 months ago
2
standardize df/f implementation for pophys and fiber photometry
#35
arielleleon
opened
11 months ago
5
Write script to deinterleave TIFFs
#34
arielleleon
closed
4 months ago
2
System test ophys_etl pipeline
#33
arielleleon
opened
11 months ago
1
Develop utils package for ophys_etl pipeline modules
#32
arielleleon
opened
11 months ago
2
Upload data assets for Jinho to do crosstalk validation
#31
arielleleon
opened
11 months ago
2
Create regex to grab correct data assets for single plane imaging pipeline
#30
arielleleon
opened
11 months ago
0
Get CaImAn, Suite 2p, and jNoRMCorre motion correction to run in CodeOcean
#29
arielleleon
opened
11 months ago
0
compare registration in most recent version of Suite2p with the version in ophys_etl
#28
arielleleon
opened
11 months ago
0
Interview Mindscope and AIND scientists about state of cross-session alignment
#27
arielleleon
opened
11 months ago
0
Track down how ophys_etl motion correction is doing non-rigid correction right now
#26
arielleleon
opened
11 months ago
0
upload example mindscope and AIND 2p data
#25
arielleleon
opened
11 months ago
0
Replicate single-plane LIMS cellular calcium imaging processing pipeline modules as capsules in code ocean
#24
arielleleon
opened
11 months ago
0
Find way to split up ophys_etl_piplines modules
#23
arielleleon
closed
11 months ago
1
run Mindscope motion correction on example data in Code Ocean
#22
arielleleon
opened
11 months ago
0
run CaImAn on example data in Code Ocean
#21
arielleleon
opened
11 months ago
0
Which data storage format for motion data?
#20
arielleleon
opened
11 months ago
0
bergamo and mindscope tiffs: Determine file format HDF5/Zarr
#19
arielleleon
opened
11 months ago
0
How are files currently organized on mesosocpe and bergamo
#18
arielleleon
opened
11 months ago
0
Interview Jerome about his Code Ocean pipeline
#17
arielleleon
opened
11 months ago
0
create "clean" suite2p motion correction capsule (without ophys_etl dependency)
#16
arielleleon
opened
11 months ago
1
Connect single-plane LIMS cellular calcium imaging capsules as pipeline in code ocean
#15
arielleleon
closed
11 months ago
1
Investigate previous whole-FOV-based ICA approach
#14
arielleleon
opened
11 months ago
1
define QC measures for motion correction and implement in capsule
#13
arielleleon
opened
11 months ago
1
figure out how ophys_etl is running suite2p registration
#12
arielleleon
opened
11 months ago
0
investigate pika ROI classifier
#11
arielleleon
opened
11 months ago
1
build OASIS event detection capsule
#10
arielleleon
opened
11 months ago
0
List prerequisites for de-crosstalking
#9
arielleleon
opened
11 months ago
0
Review available ROI segmentation methods
#8
arielleleon
opened
11 months ago
0
Document and evaluate existing decrosstalking of contaminated signals across simultaneous imaging planes
#7
arielleleon
opened
11 months ago
0
Discuss neuropil mask shape
#6
arielleleon
opened
11 months ago
0
make a place to centralize documents
#5
arielleleon
opened
11 months ago
0
Add scope to README
#4
dyf
closed
10 months ago
1
publish to PyPI
#3
dyf
opened
1 year ago
0
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