Metadata-Version: 2.4
Name: huetracer
Version: 0.0.1
Summary: Analyze cell-cell interaction with spatial transcriptome data.
Home-page: https://github.com/MANO-B/HueTracer
Author: Masachika Ikegami
Author-email: ikegamitky@gmail.com
Project-URL: Bug Tracker, https://github.com/MANO-B/HueTracer/issues
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Requires-Python: >=3.7
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: numpy
Requires-Dist: matplotlib
Requires-Dist: scipy
Requires-Dist: tqdm
Requires-Dist: scanpy
Requires-Dist: scikit-image
Requires-Dist: opencv-python
Requires-Dist: pandas
Requires-Dist: torch
Requires-Dist: plotly
Requires-Dist: matplotlib
Dynamic: author
Dynamic: author-email
Dynamic: classifier
Dynamic: home-page
Dynamic: license-file
Dynamic: requires-dist
Dynamic: requires-python
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# HueTracer: Cell-cell interaction prediction model for Visium HD spatial transcriptome platform
HueTracer is a software program created as a follow-up to [DeepCOLOR](https://github.com/kojikoji/deepcolor) software.

## Instalation
You can install HueTracer using pip command from your shell.
```shell
pip install huetracer
```

## Usage
You need to prepare Visium HD spatial transcriptome data generated with SpaceRanger program by 10X. You can see the usage as follows.

#### Visium HD giant cell tumor sample
- [Nucleus segmentation tutorial](tutorial/nucleus_segmentation_tutorial.ipynb)  
- [Cell type annotation for single cell transcriptome tutorial](tutorial/single_cell_annotation_tutorial.ipynb)  
- [Cell type label transfer tutorial](tutorial/label_transfer_tutorial.ipynb)  

#### Visium HD colon adenocarcinoma sample obtained from 10X website
- [Nucleus segmentation tutorial](tutorial/nucleus_segmentation_tutorial_10x.ipynb)  
- [Cell type annotation for single cell transcriptome tutorial](tutorial/single_cell_annotation_tutorial_10x.ipynb)  
- [Cell type label transfer tutorial](tutorial/label_transfer_tutorial_10x.ipynb)  
