spatial analysis toolkit for single-cell multiplexed tissue data
Project description
SpatialTis
SpatialTis is a high-performance spatial analysis toolkit for single-cell multiplexed tissue data using AnnData
object as input with parallel processing support.
Installation
pypi
Install the basics
pip install spatialtis
For the full features
pip install 'spatialtis[all]'
Install the current development version
pip install git+https://github.com/Mr-Milk/SpatialTis.git
SpatialTis modules
- Preprocessing
- Basic analysis
- Cell components
- Cell density
- Cell morphology
- Cell co-occurrence
- Spatial analysis
- Find cell neighbors
- Spatial distribution
- Spatial heterogeneity
- Hotspot detection
- Cell-cell interaction
- Spatial co-expression
- Spatial community detection
- Neighbor dependent markers
Project details
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