axondeepseg / axondeepseg / 18390238644

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Morphmetrics QA - export histogram & stats (#781)

* Add template class for metrics QA with an initial plot feature

* Checkpoint

* Add plot option for metrics QA

* Display stats with figures

* Add save feature

* Rudimentary integration of QA in napari using the moprhometrics button

* Remove local file, update gitignore for tmp dir

* Rudimentary implementation of flagged objects mask

* Add ignore folder

* Update AxonDeepSeg/qa/metrics_qa.py

Co-authored-by: Armand Collin <83031821+hermancollin@users.noreply.github.com>

* Remove blank line

* Add blank line

* remove tab

* Cleanup

* MVP/WIP QA report

* Demo v1

* Working version of view axon tab; except input box

* WIP

* Add keyboard shortcuts

* Improved template

* Fixed percentiles

* WIP demo

* Format /w prettier

* Flagging functionality

* Finish flagging functionality

* Improve histogram section

* Minor clean

* Pretty-fying, cleaner output file structure

* Move image object assignment after check

* Fix tests

* Fix test

* Add missing property

* Delete AxonDeepSeg/morphometrics/AxonDeepSeg_QA_demo.html

* Delete AxonDeepSeg/qa/testing.ipynb

* Bug fix - nan when ranking

* Fix bug

* Add feature documentation

* Fix syntax

* Fix syntax

* Add video to documentation and better handling of fill holes

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Co-authored-by: Armand Collin <83031821+hermancollin@users.noreply.github.com>

63 of 252 new or added lines in 4 files covered. (25.0%)

1764 of 2215 relevant lines covered (79.64%)

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