spatial analysis toolkit for single-cell multiplexed tissue data
Huge update will be happen at v0.3.0, API break, change data storage, plotting will isolate static and interactive plotting.
SpatialTis is a high-performance spatial analysis toolkit for single-cell multiplexed tissue data using
AnnData object as input with parallel processing support.
- MIBI Data (Breast cancer, 180K cells) | Download data
- IMC Data (Diabetes, 1.7M cells) | Download data
Download the examples and try it on your own, see how fast SpatialTis is.
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
- 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
- Neighbor dependent markers
Release history Release notifications | RSS feed
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