polarityjam/polarityjam issues and pull requests

#56 - fix scalebar for cellpose segmenter

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#55 - properties description in JBbook with explained math

Issue - State: open - Opened by jpalbrecht almost 2 years ago

#54 - 51 directional cue intensity ratio

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#53 - switch X and Y coordinate when handling plots

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago - 1 comment

#52 - fix instance removal bug

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#51 - directional cue intensity ratio

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#50 - added merge file output forrun-key and run-stack

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#49 - artificial dataset for testing edge cases and features

Issue - State: open - Opened by jpalbrecht almost 2 years ago

#48 - 33 documentation update

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#47 - regionprops central coordinates report y coordinate first

Issue - State: closed - Opened by jpalbrecht almost 2 years ago - 3 comments

#46 - plot for the ratio method

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#45 - ratio method for notch signals

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#44 - Correct a couple of typos and suggestions

Pull Request - State: closed - Opened by dineshpalli almost 2 years ago - 1 comment

#43 - SegmentationParameter class currently not general enough

Issue - State: closed - Opened by jpalbrecht almost 2 years ago - 1 comment

#42 - WIP: ratio method

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#41 - Add pre-commit check file

Pull Request - State: closed - Opened by dineshpalli almost 2 years ago

#40 - improve nuclei segmentation method

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#39 - ratio method based on cue direction

Issue - State: closed - Opened by jpalbrecht almost 2 years ago - 1 comment

#38 - Napari plugin

Issue - State: open - Opened by jpalbrecht almost 2 years ago

#37 - on/off switch for group feature analysis

Issue - State: closed - Opened by jpalbrecht almost 2 years ago - 1 comment

#36 - cleanup junction feature calculation

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#35 - remove experimental junction feature calculation

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#34 - Loop list could be altered during the loop

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#33 - documentation update

Issue - State: closed - Opened by jpalbrecht almost 2 years ago - 4 comments

#32 - add merged csv for run-stack and key-output

Issue - State: closed - Opened by wgiese almost 2 years ago

#31 - Return figures and axes to allow adaption within a jupyter notebook

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#30 - typing for polarityjam

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#29 - remove pixel from micron ratio from plot params

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#28 - clipping input data to valid range message

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#27 - 21 add flow threshold for cp segmentation

Pull Request - State: closed - Opened by wgiese almost 2 years ago

#26 - Improve plots

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#25 - read pixel to micron ratio out of imgs

Issue - State: open - Opened by jpalbrecht almost 2 years ago - 1 comment

#24 - Jup nb check

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#23 - adapt to cellpose_2

Issue - State: closed - Opened by wgiese almost 2 years ago

#22 - provide warning in case Moran's I computation fails

Issue - State: closed - Opened by wgiese almost 2 years ago - 1 comment

#21 - add flow_threshold for cp segmentation

Issue - State: closed - Opened by wgiese almost 2 years ago

#20 - check jupyter notebook functionality + CI test

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#19 - pypi release

Issue - State: closed - Opened by jpalbrecht almost 2 years ago - 1 comment

#18 - color code intensity for marker expression plot

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#17 - adapt color scale for segmentation plots

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#16 - out of image titles for marker expression plots

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#15 - correct resources paramters.yml default parameters and style

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#14 - plot feature of interest with color code and numeric values

Issue - State: closed - Opened by wgiese almost 2 years ago

#13 - 11 interface perimeter

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#12 - jagged junction profile

Issue - State: open - Opened by jpalbrecht almost 2 years ago - 2 comments

#11 - interface_perimeter

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#10 - cleanup, improve docu, stronger typecast

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#9 - markerNuclei Intensity / MarkerCytosol Intensity ratio

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#8 - add image hash to output

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#7 - image_hash

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#6 - stronger typing, feature renaming

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#5 - feature_renaming

Issue - State: closed - Opened by jpalbrecht almost 2 years ago

#4 - package test import structure, fix CI test call

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#3 - fix unittest - change to new project structure

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#2 - fix pypi installation

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

#1 - fix CI pypi installation

Pull Request - State: closed - Opened by jpalbrecht almost 2 years ago

GitHub / polarityjam/polarityjam issues and pull requests