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.
Tutorial:
Download the examples and try it on your own, see how fast SpatialTis is.
Installation
PYPI
pip install spatialtis
Install the current development version
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
Project details
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