noshita / ktch Goto Github PK

Is your feature request related to a problem? Please describe.
確率分布ベース形態測定学向けのパッケージが無い．

Describe the solution you'd like
Adrian et al. 2009のフレームワークが利用できるようにしたい．

Describe alternatives you've considered
存在しない．

Additional context
特になし．

• .roi
• _SPHARM.vtk
• coef file of SlicerSALT

https://github.com/marketplace/actions/pytest-coverage-comment

• SphericalHarmonicsAnalysis class

• Plot single reconstructed shape from PC scores
• Plot reconstructed shapes along PC axes
• Plot cumulative PC contribution ratio
• Plot morphospace with reconstructed shapes
• Plot convex hull on morphospace
• Plot confidence ellipse on morphospace

Is your feature request related to a problem? Please describe.
I need to conduct outline-based morphometric analysis, e.g. EFA, for several research projects.

Describe the solution you'd like
A clear and concise description of what you want to happen.
Implementing polar Fourier analysis (PFA), elliptic Fourier analysis (EFA), spherical harmonics analysis (SPHARM), and other variants.

Describe alternatives you've considered
Momocs, SHAPE, XYOM, SlicerSALT

• shapes
• geomorph
• momocs
• Polly's

Is your feature request related to a problem? Please describe.
Test

Describe the solution you'd like
Pytest

Is your feature request related to a problem? Please describe.
deformable shape解析に利用できるツールがない．

Describe the solution you'd like
最初は仮想的な骨格構造を想定し実装したい．

Describe alternatives you've considered
要調査．

Additional context
特になし．

Is your feature request related to a problem? Please describe.
形態測定学的解析をする上での前処理として画像解析が必要だが，形態解析向けの画像解析の枠組みの整備が不十分でいつもどのように進めるか悩む．

Describe the solution you'd like
形態測定学的解析向けの解析ワークフローが策定できれば良い．
best practice的な既存ツールの ktchとスムーズに連携できる 使い方

Describe alternatives you've considered
Pillow, OpenCV, Keras, Tensorflow, PyTorch, Scikit-Image

Additional context
特になし

• GPA
• thin-plate spline

• Elliptic Fourier Analysis
• Manipulating coordinate values
• Generalized Procrustes analysis
• Generalized Procrustes analysis from TPS file
• Thin-plate spline

GitHub ReleasesとRelease Pleaseを使う

• rotation
• scaling
• area

• tps
• SPHARM_PDM

Is your feature request related to a problem? Please describe.
I need to conduct landmark-based morphometric analysis, e.g. Procrustes analysis, for several research projects.

Describe the solution you'd like
Implementing Ordinary Procrustes Analysis (OPA), generarized Procrustes Analysis, and other variants.

Describe alternatives you've considered
Momocs, shapes, geomorph, MorphJ

• TPS
• kringing

• 3D EFA
• SPHARM

• TPS
• NTS
• chain-coded coordinates

Is your feature request related to a problem? Please describe.
形態測定学的解析を想定したPHのツールがあまりない．また，モデルベース形態測定学的な意味でのPH解析の整備は不十分．

Describe the solution you'd like
形態測定学向けのPHの解析フレームワークを実装したい．

Describe alternatives you've considered
GUDHI, TTK, HomCloud

Additional context
特になし

Is your feature request related to a problem? Please describe.
形態測定学的解析の前処理に機械学習を使う場合が多いが，形態測定学向けにどのような解析をしたら良いかというフレームワークや指針があまり明確ではない．特に，幾何学的形態測定学以外については無い．

Describe the solution you'd like
形態測定学向けの他のパッケージを利用した解析フレームワーク・流れを解説（もしくは解説するJupyter Notebookなどで）ktchとスムーズに連携できるようにする．

Describe alternatives you've considered
Keras, Tensorflow, Pytorch

Additional context
Add any other context or screenshots about the feature request here.