Metadata-Version: 2.1
Name: spatialtis
Version: 0.1.0
Summary: spatial analysis toolkit for single-cell multiplexed tissue data
Home-page: https://github.com/Mr-Milk/SpatialTis
Author: Mr-Milk
Author-email: yb97643@um.edu.mo
License: Apache License 2.0
Description: <p align="center">
        <img src="https://raw.githubusercontent.com/Mr-Milk/SpatialTis/master/src/Logo.svg" width="200"/>
        <p/>
        
        
        # SpatialTis
        [![Documentation Status](https://readthedocs.org/projects/spatialtis/badge/?version=latest)](https://spatialtis.readthedocs.io/en/latest/?badge=latest) ![CI](https://github.com/Mr-Milk/SpatialTis/workflows/CI/badge.svg) ![codecov](https://codecov.io/gh/Mr-Milk/SpatialTis/branch/master/graph/badge.svg?token=DYNZ45IPSQ) ![licence](https://badgen.net/badge/licence/Apache%202%2E0/blue)
        
        SpatialTis is a high-performance spatial analysis toolkit for single-cell multiplexed tissue data using [`AnnData`](https://icb-anndata.readthedocs-hosted.com/en/stable/#) object as input with **parallel processing** support.
        
        **Documentation**: [![rtd](https://badgen.net/badge/view%20on/read%20the%20docs/blue)](https://spatialtis.readthedocs.io/en/latest/)
        
        **Tutorial**: 
        - MIBI Data (Breast cancer, 180K cells) [![nbviewer](https://badgen.net/badge/view%20on/nbviewer/orange)](https://nbviewer.jupyter.org/github/Mr-Milk/SpatialTis-Tutorial/blob/master/Tutorial-1%20%28MIBI-dataset%29.ipynb)
        - IMC Data (Diabetes, 1.7M cells) [![nbviewer](https://badgen.net/badge/view%20on/nbviewer/orange)](https://nbviewer.jupyter.org/github/Mr-Milk/SpatialTis-Tutorial/blob/master/Tutorial-2%20%28IMC-dataset%29.ipynb)
        
        [Download](https://github.com/Mr-Milk/SpatialTis-Tutorial) the examples and try it on your own, see how fast SpatialTis is.
        
        ## Installation
        
        ### PYPI
        
        ```shell
        pip install spatialtis
        ```
        
        Install the current development version
        
        ```shell
        pip install git+https://github.com/Mr-Milk/SpatialTis.git
        ```
        
        
        
        ## SpatialTis modules
        
        - **Preprocessing**
        - **Data statistic**
            - Cell components
            - Cell density
            - Cell morphology
            - Cell co-occurrence
        - **Find cell neighbors**
        - **Spatial analysis**
            - Spatial distribution
            - Spatial heterogeneity
            - Hotspot detection
            - Cell-cell interaction
            - Markers co-expression
            - Spatial community detection
            - Marker influence by neighbor cell/marker
        
Platform: UNKNOWN
Classifier: License :: OSI Approved :: Apache Software License
Classifier: Programming Language :: Python :: 3
Classifier: Intended Audience :: Science/Research
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Python: >=3.6
Description-Content-Type: text/markdown
