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angelolab
/
toffy
Scripts for interacting with and generating data from the commercial MIBIScope
MIT License
10
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Enforce `exact_match=True` when listing JSON file for `get_estimated_time` for MPH
#467
alex-l-kong
opened
2 weeks ago
0
Script 3d sometimes tries to read the wrong json file
#465
dtebaykin
opened
3 weeks ago
1
Fix Noodle extraction range in convert_panel()
#464
camisowers
closed
1 month ago
0
Default extraction is only extracting noodle as 116.7-117
#463
cliu72
closed
1 month ago
0
Normalization notebook bug
#461
camisowers
closed
5 months ago
1
Bump commercial Rosetta matrix to v2
#460
alex-l-kong
closed
5 months ago
1
Implement new JSON standard for MIBIScope Update
#459
alex-l-kong
opened
6 months ago
0
Adjust the batch effect QC notebook to average stats across all TMAs
#458
camisowers
closed
7 months ago
1
Alpineer v0.1.12
#457
camisowers
opened
8 months ago
2
Prevent pulse_height_fit from throwing dtype warning with floats
#456
alex-l-kong
closed
8 months ago
0
Add support for MIBI runs acquired using autogain feature
#455
alex-l-kong
closed
8 months ago
2
Fix normalization documentation
#454
camisowers
closed
10 months ago
1
For autogain runs, add voltage plotting scheme
#453
alex-l-kong
closed
8 months ago
5
Release `v0.2.2`
#452
srivarra
closed
10 months ago
0
Fix rosetta comparison image output
#451
camisowers
closed
10 months ago
1
`randomize_setting` in `QCControlMetrics.transformed_control_effects_data` does not randomize
#450
srivarra
closed
10 months ago
1
Rosetta stitched images show black source row
#449
camisowers
closed
10 months ago
0
MIT License
#448
srivarra
closed
10 months ago
0
MIT License
#447
srivarra
closed
10 months ago
0
Next Release v0.2.2
#446
srivarra
closed
10 months ago
1
Notebook for extracting detector data for autogain testing.
#445
bryjcannon
closed
8 months ago
2
Prevent mass column from adding during `rosetta.combine_compensation_files`
#444
alex-l-kong
closed
10 months ago
0
Ensure safe conversion of panel types during `modify_panel_ranges`
#443
alex-l-kong
closed
10 months ago
1
Safer dtype handling for `panel_utils.modify_panel_ranges`
#442
alex-l-kong
closed
10 months ago
0
`combine_compensation_matrices` should not add the channel row indices together
#441
alex-l-kong
closed
10 months ago
0
Add scaling to rosetta source channel images
#440
camisowers
closed
11 months ago
1
Rosetta image stitching error
#439
camisowers
closed
11 months ago
0
QC TMA feature specification
#438
camisowers
opened
11 months ago
0
Add pre-commit to standardize toffy documentation
#437
camisowers
closed
11 months ago
0
Update pulse height generation to be compatible with `mibi-bin-tools==0.2.11`
#436
alex-l-kong
closed
11 months ago
0
Check for all run merge conflicts
#435
camisowers
closed
11 months ago
0
Updated the `toffy` environment file
#434
srivarra
closed
10 months ago
1
Update `environment.yml` to use the latest version of `toffy`
#433
srivarra
closed
10 months ago
0
Rosetta Round 2
#432
HPiyadasa
opened
11 months ago
0
Change logic to report all overlaps
#430
ngreenwald
closed
11 months ago
0
`jupyter_contrib_nbextensions` fix
#429
srivarra
closed
11 months ago
0
Ensure low sensitivity normalization correction works with negative values too
#428
alex-l-kong
closed
11 months ago
0
Standardize indexing of over- and under-normalized channels in `normalize_fov`
#427
alex-l-kong
closed
11 months ago
0
Provide more robust round 1 -> round 2 copying
#426
alex-l-kong
closed
11 months ago
1
Problem installing toffy_env and starting jupyter notebook
#425
srivarra
closed
11 months ago
0
Toffy template 4a: compensate image data
#424
dtebaykin
closed
10 months ago
0
Use updated round 2 Rosetta folder path spec
#422
alex-l-kong
closed
12 months ago
1
Space optimization for tiled Rosetta images
#421
alex-l-kong
closed
12 months ago
0
Cite TSAI in tiling notebooks, deprecating them
#420
alex-l-kong
closed
11 months ago
2
Partial FOVs clarification
#419
camisowers
closed
1 year ago
0
Indicate incompatible normalization notebook with MIBIcontrol 1.8
#418
alex-l-kong
closed
1 year ago
1
Bump to v0.2.1
#417
alex-l-kong
closed
1 year ago
0
Check for partially generated fovs
#416
camisowers
closed
1 year ago
1
Helper function for scaling images
#415
camisowers
closed
1 year ago
2
Add warning to normalization notebook
#414
ngreenwald
closed
1 year ago
0
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