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afilament
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bug: image_obj path does not work for recalculation
#86
ninanikitina
opened
1 year ago
0
Add alternative length in statistics
#85
ninanikitina
opened
1 year ago
0
Code Refactoring - Remove Auto Normalization
#84
ninanikitina
opened
1 year ago
0
Fix normalization issue
#83
ninanikitina
opened
1 year ago
0
fix settings_test_nuc_area_verification
#82
ninanikitina
opened
1 year ago
0
Change user input min actin length to microns (instead of pixels)
#81
ninanikitina
opened
1 year ago
0
Change Actin Volume Stat
#80
ninanikitina
opened
1 year ago
0
Change Actin Length Stat
#79
ninanikitina
opened
1 year ago
0
Add image name for czi set in stat
#78
ninanikitina
opened
1 year ago
0
Investigate "find_biggest_mode": "unet" issue for the cell
#77
ninanikitina
opened
1 year ago
0
Run analysis w200: First cell
#76
ninanikitina
opened
1 year ago
0
Run analysis w20: First cell
#75
ninanikitina
opened
1 year ago
0
Add normalization at Utils.save_as_8bit
#74
ninanikitina
opened
1 year ago
0
Bug fix: Change branching stat
#73
ninanikitina
opened
1 year ago
0
Demonstrate the new visualization capability by testing statistics on our very first cells
#72
ninanikitina
opened
1 year ago
2
Implement a feature to scatter fibers based on their average cross-sectional area to show relative sizes of fibers
#71
ninanikitina
opened
1 year ago
0
Bug fix: number of actin for each node
#70
ninanikitina
opened
1 year ago
0
Enhance the graphs by adding statistical information about fibers to improve user analysis and interpretation.
#69
ninanikitina
opened
1 year ago
1
Bug fix: nodes and fiber saved inncorrectly
#68
ninanikitina
opened
1 year ago
0
Create a visualization script that generates visualizations of filament objects based on user-defined input parameters
#67
ninanikitina
opened
1 year ago
1
Create Recalculate statistics window
#66
ninanikitina
opened
1 year ago
1
Run GUI tests
#65
ninanikitina
opened
1 year ago
0
Create a prompt window to allow users to choose between running a new analysis or recalculating already analyzed images
#64
ninanikitina
opened
1 year ago
1
user should provide path to image object
#63
ninanikitina
opened
1 year ago
0
Save nucleus mesh in verification_folder
#62
ninanikitina
opened
1 year ago
0
Enhance the data verification functionality by including the mask in the middle_xsection
#61
ninanikitina
opened
1 year ago
0
Fix typo: nodes_total -> nodes_cap
#60
ninanikitina
opened
1 year ago
0
Modify the config file saving routine to accommodate new analysis and recalculation
#59
ninanikitina
opened
1 year ago
0
Remove actin object from analysis output
#58
ninanikitina
opened
1 year ago
0
Save aggregated stat data in streaming manner
#57
ninanikitina
opened
1 year ago
0
Convert fiber_min_layers_theshold parameter to fiber_min_length: from pixels to um
#56
ninanikitina
opened
1 year ago
0
Run analysis for 40 and 10 layers for liv set cells 1, 2, 3 and compare results with previous program output
#55
ninanikitina
opened
1 year ago
4
Create a folder structure to organize outputs based on criteria
#54
ninanikitina
opened
1 year ago
2
BUG: save nuc area verification for leica
#53
ninanikitina
opened
1 year ago
0
Test afilament on all 3 types of imges
#52
ninanikitina
opened
1 year ago
0
Create pickle object for each image (not fibers, not cells)
#51
ninanikitina
opened
1 year ago
0
Fix folder structure
#50
ninanikitina
opened
1 year ago
0
Train new nucleus model for max projection
#49
ninanikitina
opened
1 year ago
5
Create simple GUI
#48
mal-boisestate
opened
1 year ago
0
Save all minimal actin length to obtain different statistics
#47
mal-boisestate
opened
1 year ago
0
Build figures using Python library instead of Prizm application
#46
ninanikitina
opened
1 year ago
0
Create Jupyter notebook to filter actin data
#45
ninanikitina
opened
1 year ago
0
Create KASH stat figures for the paper
#44
ninanikitina
opened
1 year ago
0
Retrain KASH nuc and actin models
#43
ninanikitina
opened
1 year ago
1
Analyze data set using W20 model
#42
ninanikitina
opened
1 year ago
0
Analyze data set using W200 model
#41
ninanikitina
opened
1 year ago
0
Run training save log info
#40
ninanikitina
opened
1 year ago
5
Create actin masks
#39
ninanikitina
opened
1 year ago
0
manually compare analysis outcome for new and old actin models
#38
ninanikitina
opened
1 year ago
0
Correct all sum intensity to int64
#37
ninanikitina
opened
1 year ago
0
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