Topp-Roots-Lab 3d-root-crown-analysis-pipeline issues

Topp-Roots-Lab / 3d-root-crown-analysis-pipeline

A pipeline to process 3-D volumes (.raw) of maize root crowns. Also known as XRCAP.

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issues

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Version 1.8.0

#56 kenanoestreich closed 8 months ago
3
[REQUEST] Allow selection/removal of traits from the computation (either individually or in categories)

#55 kenanoestreich opened 9 months ago
0
[REQUEST] Add real-world units to trait outputs instead of voxel numbers and the like

#54 kenanoestreich opened 9 months ago
0
Way to easily register skeleton to volume data

#53 kenanoestreich opened 1 year ago
0
vhist

#52 TheSnowCat opened 1 year ago
1
[Request] Automate build/resolving dependencies

#50 tparkerd opened 2 years ago
0
[Request] Move dependencies to requirements.txt

#49 tparkerd opened 2 years ago
0
[Request] Add a build rule to Makefile

#48 tparkerd opened 2 years ago
0
Bump pip from 19.2.3 to 21.1

#47 dependabot[bot] closed 2 years ago
0
Result collation tool

#46 tparkerd opened 2 years ago
0
Create a plot of the PCAs for better understanding

#44 tparkerd opened 2 years ago
0
Add RPF/matlab-based traits (biomass_vhist & convexhull_vhist) to README

#43 tparkerd opened 2 years ago
0
Enable KDE-basedd tratis by default

#42 tparkerd opened 2 years ago
0
[REQUEST] Uninformative error message when pipeline is run on non-existent folder

#41 tparkerd opened 2 years ago
0
Feature/user defined thresholding

#40 tparkerd closed 2 years ago
1
Update documentation

#39 tparkerd closed 3 years ago
0
Update documentation

#38 tparkerd closed 3 years ago
0
Allow users more control at runtime of segmentation and trait calculation

#37 tparkerd closed 3 years ago
1
Allow users to define depth (per centimeter) at runtime for kernel density estimates

#36 tparkerd closed 3 years ago
1
Feature/segment by bounds csv

#35 tparkerd closed 3 years ago
2
Account for spaces in filepaths when running external MATLAB code

#34 tparkerd closed 3 years ago
0
[Feature] Root volume per mm of depth

#33 tparkerd opened 3 years ago
0
Terrible segmentation during soil removal

#32 tparkerd closed 3 years ago
1
Filepaths with spaces not handled when calling MATLAB module

#31 tparkerd closed 3 years ago
0
Replace xvfb + meshlabserver with PyMeshLab for QC mesh conversion

#30 tparkerd opened 3 years ago
1
Joint update: v1.6.2 and v1.6.3

#29 tparkerd closed 3 years ago
0
Conversion tool for binary image to PCD (.out and .obj)

#28 tparkerd opened 3 years ago
1
Divide by zero during rootCrownImageAnalysis3D

#27 tparkerd closed 3 years ago
2
Possibly over aggressive segmentation

#26 tparkerd closed 3 years ago
3
Reshaping Error for KDE-based Traits

#25 tparkerd closed 3 years ago
1
Feature/radial adjustment

#24 tparkerd closed 3 years ago
0
Pool / NoneType Error during image analysis

#23 tparkerd closed 3 years ago
1
Circles at Bottom and Top of Volume

#22 tparkerd closed 3 years ago
3
GCC Version for Compiling on Ludo

#21 tparkerd opened 4 years ago
0
Fix system location for logging and use makefile for installation

#20 tparkerd closed 4 years ago
0
Wrong System Log Location

#19 tparkerd closed 4 years ago
0
v1.6.0 Update

#18 tparkerd closed 4 years ago
0
Feature/parallelize image analysis

#17 tparkerd closed 4 years ago
0
Feature/batch matlab

#16 tparkerd closed 4 years ago
0
Feature/optimize points

#15 tparkerd closed 4 years ago
0
Logging Updates & Refactoring

#14 tparkerd closed 4 years ago
0
Alternative segmentation method and logging centralization

#13 tparkerd closed 4 years ago
0
User input errors for rootCrownImageAnalysis3D & QoL updates

#12 tparkerd closed 4 years ago
1
New thresholding method for segmentation

#11 tparkerd closed 4 years ago
2
Processed fails when a single point cloud volume is provided

#10 tparkerd closed 4 years ago
0
Quality Control & QoL Updates

#9 tparkerd closed 4 years ago
0
QoL Changes for Segmentation QC

#8 tparkerd closed 4 years ago
0
Parallelize segmentation and skeletonization

#7 tparkerd closed 4 years ago
0
Parallelize raw2img

#6 tparkerd closed 4 years ago
0
Updates & Refactors: raw2img & rootCrownImageAnalysis3D

#5 tparkerd closed 4 years ago
0