PyTransKit
Python Library for Signal/Image Data Analysis with Transport Methods
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- I0.bmp
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- phantom.png
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- conf.py
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- make.bat
- Makefile
- Example01_estimation_delay.ipynb
- Example02_estimation_delay_linear_dispersion.ipynb
- Example_Parameter_Estimation_with_SCDT.ipynb
- Example_PDE_system_identification.ipynb
- checkLocalMin.m
- compVOTGradients.asv
- compVOTGradients.m
- freezeColors.m
- gaussian_bf.m
- gen_pdf.m
- gradient.m
- inpaint_nans3.m
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- showgrid.m
- unfreezeColors.m
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- DGradient.c
- DGradient.m
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- license.txt
- uTest_DGradient.m
- _coder_GPExpand_api.c
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- _clang-format
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- build.ninja
- buildInfo.mat
- compile_commands.json
- find.c
- find.h
- floor.obj
- GPExpand.c
- GPExpand.h
- GPExpand.map
- GPExpand.mexmaci64
- GPExpand.obj
- GPExpand_data.c
- GPExpand_data.h
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- GPExpand_emxutil.c
- GPExpand_emxutil.h
- GPExpand_emxutil.obj
- GPExpand_initialize.c
- GPExpand_initialize.h
- GPExpand_initialize.obj
- GPExpand_internal_types.h
- GPExpand_mex.bat
- GPExpand_mex.exp
- GPExpand_mex.lib
- GPExpand_mex.mexw64
- GPExpand_mex.mexw64.manifest.xml
- GPExpand_mex.mk
- GPExpand_mex.mki
- GPExpand_mex.sh
- GPExpand_mex_mex.arf
- GPExpand_terminate.c
- GPExpand_terminate.h
- GPExpand_terminate.obj
- GPExpand_types.h
- rt_nonfinite.c
- rt_nonfinite.h
- rtwtypes.h
- setEnv.bat
- sum.obj
- sumMatrixIncludeNaN.c
- sumMatrixIncludeNaN.h
- _coder_GPReduce_api.c
- _coder_GPReduce_api.h
- _coder_GPReduce_info.c
- _coder_GPReduce_info.h
- _coder_GPReduce_mex.c
- _coder_GPReduce_mex.h
- _clang-format
- build.ninja
- buildInfo.mat
- compile_commands.json
- GPReduce.c
- GPReduce.h
- GPReduce.map
- GPReduce.mexmaci64
- GPReduce_data.c
- GPReduce_data.h
- GPReduce_emxutil.c
- GPReduce_emxutil.h
- GPReduce_initialize.c
- GPReduce_initialize.h
- GPReduce_internal_types.h
- GPReduce_mex.sh
- GPReduce_terminate.c
- GPReduce_terminate.h
- GPReduce_types.h
- rt_nonfinite.c
- rt_nonfinite.h
- rtwtypes.h
- sumMatrixIncludeNaN.c
- sumMatrixIncludeNaN.h
- GPExpand.m
- GPExpand.mexmaci64
- GPReduce.m
- GPReduce.mexmaci64
- imshow3Dfull.m
- license.txt
- Preprocessing pipeline.ipynb
- scalingtranslation.m
- Calculate_Alpha.m
- histfit1.m
- histfit2.m
- inpaint_nans3.m
- Installation.m
- Main.asv
- Main.m
- PCA_decomp.m
- PLDA.m
- Projection_metric.m
- Regression.m
- templatefinal.mat
- thresh_template.m
- visualizePLDA2.m
- README.md
- __init__.py
- cdt_ns.py
- inv_enc.py
- rcdt_ns.py
- rcdt_ns_3d.py
- RSCDT_NS.py
- scdt_nls.py
- scdt_ns.py
- utils.py
- __init__.py
- datasets_manager.py
- divergences.py
- synthetic_dataset_builder.py
- __init__.py
- base.py
- cdt.py
- clot.py
- discretelot.py
- radoncdt.py
- radoncdt3D.py
- radonscdt.py
- scdt.py
- __init__.py
- cca.py
- modes.py
- plda.py
- __init__.py
- data_utils.py
- validation.py
- visualize.py
- __init__.py
- visualize.py
- __init__.py
- __init__.py
- preprocessing.py
- README.md
- TBM.ipynb
- TBM_CLOT.py
- TBM_PLOT.py
- TBM_RCDT.py
- utils.py
- __init__.py
- gradient.py
- image_processing.py
- multVOT.py
- pca_tbm3d.py
- README.md
- TBM_forward.py
- visualization.py
- VOT3D.py
- __init__.py
- pytranskit_figure.png
- pytranskit_figure_previous.png
- .DS_Store
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- .DS_Store
- .DS_Store
- cell_data_for_Matlab.mat
- cell_data_part_app_from_python.mat
- CLOT3D_I0.npy
- CLOT3D_I1.npy
- IMG_data.mat
- I1.tiff
- I10.tiff
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- .DS_Store
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- Liver_Nuclei_20samples.mat
- liver_nuclei_for_matlab.mat
- dataORG_0.mat
- dataORG_1.mat
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- dataORG_3.mat
- dataORG_4.mat
- dataORG_5.mat
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- dataORG_7.mat
- dataORG_8.mat
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- dataORG_0.mat
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- dataORG_7.mat
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- dataORG_9.mat
- dataORG_0.mat
- dataORG_1.mat
- dataORG_0.mat
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- dataset.hdf5
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- .DS_Store
- .DS_Store
- dataORG_0.mat
- dataORG_1.mat
- dataORG_0.mat
- dataORG_1.mat
- IMG_data.mat
- LOT_reference.mat
- plda.png
- tbm1.png
- v1.png
- v2.png
- I0.bmp
- I1.bmp
- phantom.png
- phantom3D.mat
- nsws.hdf5
- lot_functions.py
- 01_tutorial_cdt.ipynb
- 02_tutorial_rcdt.ipynb
- 03_tutorial_RCDT-NS_classifier.ipynb
- 04_tutorial_CDT-NS_classifier.ipynb
- 05_tutorial_rcdt3D.ipynb
- 06_tutorial_3DRCDT-NS_classifier.ipynb
- 07_tutorial_clot.ipynb
- 08_tutorial_TBM.ipynb
- 09_tutorial_SCDT_classification.ipynb
- 10_tutorial_SCDT.ipynb
- 11_tutorial_SCDT-NS_classifier.ipynb
- 12_tutorial_INVARIANCE_ENCODING_classifier.ipynb
- 13_tutorial_SCDT-NLS_classifier.ipynb
- 14_RSCDT-Forward and inverse transform .ipynb
- 15_RSCDT_tutorial.ipynb
- 16_dT_divergence_tutorial.ipynb
- 17_tutorial_3DTBM.ipynb
- 18_tutorial_clot3d.ipynb
- IXI_cca.ipynb
- .gitignore
- LICENSE
- publish.sh
- README.md
- requirements.txt
- setup.cfg
- setup.py
# Installation Guide
1. Get the code
git clone https://github.com/rohdelab/PyTransKit
Downloads the entire project code from GitHub to your computer.
cd PyTransKit
Moves into the project folder you just downloaded.
2. Official Install Script
Easy RecommendedPrerequisites
- Python 3 Python is required to use pip.
pip install pytranskit
Installs the package published on PyPI directly β no need to clone the source.
After installing, open a new terminal and run the program's version command (e.g. --version) to confirm it worked.
Pulled directly from this repo's README.
3. Python
EasyPrerequisites
pip install pytranskit
Installs the package published on PyPI directly β no need to clone the source.
If it runs without errors and prints output in the terminal, it worked.
Pulled directly from this repo's README.
// repository documentation
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