Code

Downstream fiber analysis updates#974

Code

Merged

ngreenwald merged 33 commits intomainangelolab/ark-analysis:mainfrom frangi_fiber_filteringangelolab/ark-analysis:frangi_fiber_filteringCopy head branch name to clipboardMay 11, 2023

+546-31

Commits

Commits on Apr 7, 2023

• frangi filtering with default widths

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Commits on Apr 11, 2023

• calculate alignment score per fiber

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Commits on Apr 18, 2023

• check for alignment score in table generation

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• testing tweaks

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• pin alpineer to 0.1.5

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• jk

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• we're back

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Commits on Apr 19, 2023

• formatting :/

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Commits on May 4, 2023

• add fov level and tile level stats calculation

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• density tests

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• Merge branch 'main' into frangi_fiber_filtering

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• density x100

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• pycodestyle

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Commits on May 5, 2023

• summary stats testing

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• series -> value

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• typo

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• Merge branch 'main' into frangi_fiber_filtering

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• tile size 8

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• Merge remote-tracking branch 'origin/frangi_fiber_filtering' into frangi_fiber_filtering

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Commits on May 8, 2023

• min 5 fibers, cast mean as float

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• use np.mean

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• indexing issues

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• fin

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Commits on May 9, 2023

• add summary stats to notebook

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• fiber number param

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• tile stat helper function

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• variable conflict

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• tile test fix

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• no index in files

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Commits on May 10, 2023

• if statement simplify

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Commits on May 11, 2023

• add color masking by property

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• docstring edit

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• notebook typo

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