angelolab / ark-analysis

Integrated pipeline for multiplexed image analysis
https://ark-analysis.readthedocs.io/en/latest/
MIT License
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Include all fiber properties in stats generation #1014

Closed camisowers closed 1 year ago

camisowers commented 1 year ago

If you haven't already, please read through our contributing guidelines before opening your PR

What is the purpose of this PR?

Besides density measurements, only fiber alignment and length are averaged and stored in the summary stats / tile stats files. We would like to calculate averages for all stats included in the original fiber table.

How did you implement your changes

Compute and save averages for fiber width, orientation, area, eccentricity, euler number.

Remaining issues

N/A